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Conserved domains on  [gi|1799935003|ref|XP_031948607|]
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ATP-dependent DNA helicase Q4 isoform X3 [Corvus moneduloides]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RecQ super family cl33925
Superfamily II DNA helicase RecQ [Replication, recombination and repair];
486-860 3.08e-109

Superfamily II DNA helicase RecQ [Replication, recombination and repair];


The actual alignment was detected with superfamily member COG0514:

Pssm-ID: 440280 [Multi-domain]  Cd Length: 489  Bit Score: 352.91  E-value: 3.08e-109
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  486 EEVLEALRNL-GYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAFLyhkNSGsVSLVISPLVSLMDDQVSGLp 564
Cdd:COG0514      3 DDALEVLKRVfGYDSFRPGQEEIIEAVLAGRDALVVMPTGGGKSLCYQLPALL---LPG-LTLVVSPLIALMKDQVDALr 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  565 p-cLKAVCIHSNLSQSQREAAMEKVRNGQAQILLLSPEALVASGssslfFRDRLP--PVAFACLDEAHCISQWSHNFRPA 641
Cdd:COG0514     79 aagIRAAFLNSSLSAEERREVLRALRAGELKLLYVAPERLLNPR-----FLELLRrlKISLFAIDEAHCISQWGHDFRPD 153

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  642 YLRVcKVLRQRLG--------------VRcflgltatataataRDVAQHLGIPPEQ---GGGVRSaavpaNLLLSVS--M 702
Cdd:COG0514    154 YRRL-GELRERLPnvpvlaltatatprVR--------------ADIAEQLGLEDPRvfvGSFDRP-----NLRLEVVpkP 213

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  703 DADREQALLSLLRADPFGSChplIVFCTRREDTERLAALLRSQfpqfpphpkplgknpgkgktaGIpgfcSATAYHAGLS 782
Cdd:COG0514    214 PDDKLAQLLDFLKEHPGGSG---IVYCLSRKKVEELAEWLREA---------------------GI----RAAAYHAGLD 265

                          330       340       350       360       370       380       390
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1799935003  783 GPERRRIQRDFMGGRIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLFLEPQGRDLPE 860
Cdd:COG0514    266 AEEREANQDRFLRDEVDVIVATIAFGMGIDKPDVRFVIHYDLPKSIEAYYQEIGRAGRDGLPAEALLLYGPEDVAIQR 343
RecQL4_SLD2_NTD cd22289
N-terminal homeodomain-like domain of metazoan RecQ protein-like 4 (RecQL4), fungal DNA ...
 2-50 8.40e-19

N-terminal homeodomain-like domain of metazoan RecQ protein-like 4 (RecQL4), fungal DNA replication regulator SLD2 and similar proteins; RecQL4, also called ATP-dependent DNA helicase Q4, or DNA helicase, RecQ-like type 4 (RecQ4), or RTS, is a DNA-dependent ATPase that may modulate chromosome segregation. This family also includes fungal DNA replication regulator SLD2, also known as DNA replication and checkpoint protein 1 (DRC1), which functions with DPB11 to control DNA replication and the S-phase checkpoint. It is also required for the proper activation of RAD53 in response to DNA damage and replication blocks. This model corresponds to the N-terminal domain of RecQL4 and SLD2, which is a homeodomain-like DNA interaction motif.


:

Pssm-ID: 412085  Cd Length: 49  Bit Score: 80.75  E-value: 8.40e-19
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 1799935003    2 ERQQELKVLLKRWEAEFLRERRRKPSQADIEEAPEETRKLYKEYRMLKQ 50
Cdd:cd22289      1 ERLQELKIALKTWERAFAKKHGRKPTKDDIKAAPEEIKDLYKEYAKLKK 49
PTZ00449 super family cl33186
104 kDa microneme/rhoptry antigen; Provisional
 21-282 5.15e-05

104 kDa microneme/rhoptry antigen; Provisional


The actual alignment was detected with superfamily member PTZ00449:

Pssm-ID: 185628 [Multi-domain]  Cd Length: 943  Bit Score: 47.76  E-value: 5.15e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003   21 ERRRKPSQADIEEAPEETRKLYKEYRMLKQQGKASDSSektgSQEIPNVEQvEDSGFWGSHLNRAPKIPGKSRSG-SARP 99
Cdd:PTZ00449   531 EGEHEDSKESDEPKEGGKPGETKEGEVGKKPGPAKEHK----PSKIPTLSK-KPEFPKDPKHPKDPEEPKKPKRPrSAQR 605

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  100 GISAEFYGMKLKAKLGMTGKEP--PLTPRRTPNPRR--IPKIPQSQKNPEREAEASSPEPPRNEGESEKSGD-----AGK 170
Cdd:PTZ00449   606 PTRPKSPKLPELLDIPKSPKRPesPKSPKRPPPPQRpsSPERPEGPKIIKSPKPPKSPKPPFDPKFKEKFYDdyldaAAK 685

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  171 SGDPEKS----GEFSGLGPLTLPAgmNPGFP-----PVPDKFQRLKQSVAQTLRSLDpgwlqrcQESPENQEFPAGSVRE 241
Cdd:PTZ00449   686 SKETKTTvvldESFESILKETLPE--TPGTPfttprPLPPKLPRDEEFPFEPIGDPD-------AEQPDDIEFFTPPEEE 756

                          250       260       270       280       290
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1799935003  242 KGEIHTASIG----------------NSVRKRPREGGGAAEAPAKLQRGPQGSDPGI 282
Cdd:PTZ00449   757 RTFFHETPADtplpdilaeefkeediHAETGEPDEAMKRPDSPSEHEDKPPGDHPSL 813
ZnF_C2HC smart00343
zinc finger;
383-398 1.31e-03

zinc finger;


:

Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 37.04  E-value: 1.31e-03
                            10
                    ....*....|....*.
gi 1799935003   383 VCFRCGRKGHWASECR 398
Cdd:smart00343    1 KCYNCGKEGHIARDCP 16
PRK04537 super family cl35267
ATP-dependent RNA helicase RhlB; Provisional
 777-1015 4.57e-03

ATP-dependent RNA helicase RhlB; Provisional


The actual alignment was detected with superfamily member PRK04537:

Pssm-ID: 235307 [Multi-domain]  Cd Length: 572  Bit Score: 41.09  E-value: 4.57e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  777 YHAG-LSG--PERRR--IQRDFMGGRIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLF- 850
Cdd:PRK04537   282 YRVGvLSGdvPQKKResLLNRFQKGQLEILVATDVAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGDAISFa 361

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  851 LEPQGRDLPELRRHIYG----DSVDFWAIRKLLQRVFAPCKCLEIHGKLRDPPEDLEPESsgiLEFREREKRRlcRGHER 926
Cdd:PRK04537   362 CERYAMSLPDIEAYIEQkipvEPVTAELLTPLPRPPRVPVEGEEADDEAGDSVGTIFREA---REQRAAEEQR--RGGGR 436

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  927 CVPvaelvQALDLREEGENSGMRPGIRES--PPGPGIPGAVPAFPSRSDRDPPVLPGAASRQLPAAASCHRFPLPHPLLR 1004
Cdd:PRK04537   437 SGP-----GGGSRSGSVGGGGRRDGAGADgkPRPRRKPRVEGEADAAAAGAETPVVAAAAAQAPGVVAADGERAPRKRRR 511

                          250
                   ....*....|.
gi 1799935003 1005 RRPAAPGAGAE 1015
Cdd:PRK04537   512 RRNGRPVEGAE 522
 
Name Accession Description Interval E-value
RecQ COG0514
Superfamily II DNA helicase RecQ [Replication, recombination and repair];
486-860 3.08e-109

Superfamily II DNA helicase RecQ [Replication, recombination and repair];


Pssm-ID: 440280 [Multi-domain]  Cd Length: 489  Bit Score: 352.91  E-value: 3.08e-109
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  486 EEVLEALRNL-GYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAFLyhkNSGsVSLVISPLVSLMDDQVSGLp 564
Cdd:COG0514      3 DDALEVLKRVfGYDSFRPGQEEIIEAVLAGRDALVVMPTGGGKSLCYQLPALL---LPG-LTLVVSPLIALMKDQVDALr 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  565 p-cLKAVCIHSNLSQSQREAAMEKVRNGQAQILLLSPEALVASGssslfFRDRLP--PVAFACLDEAHCISQWSHNFRPA 641
Cdd:COG0514     79 aagIRAAFLNSSLSAEERREVLRALRAGELKLLYVAPERLLNPR-----FLELLRrlKISLFAIDEAHCISQWGHDFRPD 153

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  642 YLRVcKVLRQRLG--------------VRcflgltatataataRDVAQHLGIPPEQ---GGGVRSaavpaNLLLSVS--M 702
Cdd:COG0514    154 YRRL-GELRERLPnvpvlaltatatprVR--------------ADIAEQLGLEDPRvfvGSFDRP-----NLRLEVVpkP 213

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  703 DADREQALLSLLRADPFGSChplIVFCTRREDTERLAALLRSQfpqfpphpkplgknpgkgktaGIpgfcSATAYHAGLS 782
Cdd:COG0514    214 PDDKLAQLLDFLKEHPGGSG---IVYCLSRKKVEELAEWLREA---------------------GI----RAAAYHAGLD 265

                          330       340       350       360       370       380       390
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1799935003  783 GPERRRIQRDFMGGRIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLFLEPQGRDLPE 860
Cdd:COG0514    266 AEEREANQDRFLRDEVDVIVATIAFGMGIDKPDVRFVIHYDLPKSIEAYYQEIGRAGRDGLPAEALLLYGPEDVAIQR 343
DEXHc_RecQ4-like cd18018
DEAH-box helicase domain of RecQ4 and similar proteins; ATP-dependent DNA helicase Q4 (RecQ4) ...
 489-681 5.85e-88

DEAH-box helicase domain of RecQ4 and similar proteins; ATP-dependent DNA helicase Q4 (RecQ4) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region. Mutations cause Rothmund-Thomson/RAPADILINO/Baller-Gerold syndrome.


Pssm-ID: 350776 [Multi-domain]  Cd Length: 201  Bit Score: 283.38  E-value: 5.85e-88
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  489 LEALRNL-GYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAFLYHKNSGSVSLVISPLVSLMDDQVSGLPPCL 567
Cdd:cd18018      1 LKLLRRVfGHPSFRPGQEEAIARLLSGRSTLVVLPTGAGKSLCYQLPALLLRRRGPGLTLVVSPLIALMKDQVDALPRAI 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  568 KAVCIHSNLSQSQREAAMEKVRNGQAQILLLSPEALVASGSSSLFFrdRLPPVAFACLDEAHCISQWSHNFRPAYLRVCK 647
Cdd:cd18018     81 KAAALNSSLTREERRRILEKLRAGEVKILYVSPERLVNESFRELLR--QTPPISLLVVDEAHCISEWSHNFRPDYLRLCR 158

                          170       180       190
                   ....*....|....*....|....*....|....
gi 1799935003  648 VLRQRLGVRCFLGLTATATAATARDVAQHLGIPP 681
Cdd:cd18018    159 VLRELLGAPPVLALTATATKRVVEDIASHLGIPE 192
recQ TIGR01389
ATP-dependent DNA helicase RecQ; The ATP-dependent DNA helicase RecQ of E. coli is about 600 ...
 493-865 3.29e-85

ATP-dependent DNA helicase RecQ; The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273594 [Multi-domain]  Cd Length: 591  Bit Score: 290.05  E-value: 3.29e-85
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  493 RNLGYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAFLYhknsGSVSLVISPLVSLMDDQVSGLPPC-LKAVC 571
Cdd:TIGR01389    7 RTFGYDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQVPALLL----KGLTVVISPLISLMKDQVDQLRAAgVAAAY 82

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  572 IHSNLSQSQREAAMEKVRNGQAQILLLSPEALVasgssSLFFRDRL---PPVAFAcLDEAHCISQWSHNFRPAYLRVCkV 648
Cdd:TIGR01389   83 LNSTLSAKEQQDIEKALVNGELKLLYVAPERLE-----QDYFLNMLqriPIALVA-VDEAHCVSQWGHDFRPEYQRLG-S 155

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  649 LRQRLGVRCFLGLTATATAATARDVAQHLGI--PPEQgggVRSAAVPaNLLLSVSMDADREQALLSLLRADPFGSChplI 726
Cdd:TIGR01389  156 LAERFPQVPRIALTATADAETRQDIRELLRLadANEF---ITSFDRP-NLRFSVVKKNNKQKFLLDYLKKHRGQSG---I 228

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  727 VFCTRREDTERLAALLRSQfpqfpphpkplgknpgkgktaGIPgfcsATAYHAGLSGPERRRIQRDFMGGRIRVLVATVA 806
Cdd:TIGR01389  229 IYASSRKKVEELAERLESQ---------------------GIS----ALAYHAGLSNKVRAENQEDFLYDDVKVMVATNA 283

                          330       340       350       360       370
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1799935003  807 FGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLFLEPQgrDLPELRRHI 865
Cdd:TIGR01389  284 FGMGIDKPNVRFVIHYDMPGNLESYYQEAGRAGRDGLPAEAILLYSPA--DIALLKRRI 340
PRK11057 PRK11057
ATP-dependent DNA helicase RecQ; Provisional
 484-863 1.38e-69

ATP-dependent DNA helicase RecQ; Provisional


Pssm-ID: 182933 [Multi-domain]  Cd Length: 607  Bit Score: 245.78  E-value: 1.38e-69
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  484 PPEEVLEalRNLGYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAFLYhknsGSVSLVISPLVSLMDDQVSGL 563
Cdd:PRK11057    12 LAKQVLQ--ETFGYQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQIPALVL----DGLTLVVSPLISLMKDQVDQL 85

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  564 PP-CLKAVCIHSNLSQSQREAAMEKVRNGQAQILLLSPEALVASGssslfFRDRLP--PVAFACLDEAHCISQWSHNFRP 640
Cdd:PRK11057    86 LAnGVAAACLNSTQTREQQLEVMAGCRTGQIKLLYIAPERLMMDN-----FLEHLAhwNPALLAVDEAHCISQWGHDFRP 160

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  641 AYlRVCKVLRQRLGVRCFLGLTATATAATARDVAQHLGI--PPEQGGGVRSAAVPANLLlsvsmdaDREQALLSLLR--A 716
Cdd:PRK11057   161 EY-AALGQLRQRFPTLPFMALTATADDTTRQDIVRLLGLndPLIQISSFDRPNIRYTLV-------EKFKPLDQLMRyvQ 232

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  717 DPFGSCHplIVFCTRREDTERLAALLRSQfpqfpphpkplgknpgkgktaGIpgfcSATAYHAGLSGPERRRIQRDFMGG 796
Cdd:PRK11057   233 EQRGKSG--IIYCNSRAKVEDTAARLQSR---------------------GI----SAAAYHAGLDNDVRADVQEAFQRD 285

                          330       340       350       360       370       380
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1799935003  797 RIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLFLEPQgrDLPELRR 863
Cdd:PRK11057   286 DLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPA--DMAWLRR 350
DpdF NF041063
protein DpdF;
455-849 1.09e-46

protein DpdF;


Pssm-ID: 468990 [Multi-domain]  Cd Length: 813  Bit Score: 181.26  E-value: 1.09e-46
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  455 FPW-PEFSPSPPPAAVD-PLYSPAPDGTIPDPP-EEVLEALrnLGYDSFR-PGQAEAVMRILS---GlSTLVV-LPTGMG 526
Cdd:NF041063    94 RPWrPEWLDAAADDPPFeDVFAERLRRTLEPVPgDPFLAEA--LGFTHYRsPGQREAVRAALLappG-STLIVnLPTGSG 170

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  527 KSLCYQLPAfLYHKNSGSVSLVISPLVSLMDDQ-------VSGLPPCLKAVCI-HSNLSQSQREAAMEKVRNGQAQILLL 598
Cdd:NF041063   171 KSLVAQAPA-LLASRQGGLTLVVVPTVALAIDQerrarelLRRAGPDLGGPLAwHGGLSAEERAAIRQRIRDGTQRILFT 249

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  599 SPEALVASGSSSLF-------FRdrlppvAFAcLDEAHCISQWSHNFRPAYlrvckvlrQRLG--VRCFLGLTATATA-- 667
Cdd:NF041063   250 SPESLTGSLRPALFdaaeaglLR------YLV-VDEAHLVDQWGDGFRPEF--------QLLAglRRSLLRLAPSGRPfr 314

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  668 ---------ATARDVAQHLGIPPEQGGGVRSAAV---PANLLLSVSMDADREQALLSLLRADPfgscHPLIVFCTRREDT 735
Cdd:NF041063   315 tlllsatltESTLDTLETLFGPPGPFIVVSAVQLrpePAYWVAKCDSEEERRERVLEALRHLP----RPLILYVTKVEDA 390

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  736 ERLAALLRSQfpqfpphpkplgknpgkgktagipGFCSATAYHAGLSGPERRRIQRDFMGGRIRVLVATVAFGMGLDKAD 815
Cdd:NF041063   391 EAWLQRLRAA------------------------GFRRVALFHGDTPDAERERLIEQWRENELDIVVATSAFGLGMDKSD 446

                          410       420       430
                   ....*....|....*....|....*....|....
gi 1799935003  816 VRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHL 849
Cdd:NF041063   447 VRTVIHACVPETLDRFYQEVGRGGRDGKASLSLL 480
DEXDc smart00487
DEAD-like helicases superfamily;
492-655 4.59e-20

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 89.86  E-value: 4.59e-20
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003   492 LRNLGYDSFRPGQAEAVMRILSGL-STLVVLPTGMGKSLCYQLPAFLY-HKNSGSVSLVISPLVSLMDDQVS-----GLP 564
Cdd:smart00487    1 IEKFGFEPLRPYQKEAIEALLSGLrDVILAAPTGSGKTLAALLPALEAlKRGKGGRVLVLVPTRELAEQWAEelkklGPS 80

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003   565 PCLKAVCIHSNLSqsqREAAMEKVRNGQAQILLLSPEALVASGSSSLFFRDRlppVAFACLDEAHCISQWshNFRPAYLR 644
Cdd:smart00487   81 LGLKVVGLYGGDS---KREQLRKLESGKTDILVTTPGRLLDLLENDKLSLSN---VDLVILDEAHRLLDG--GFGDQLEK 152

                           170
                    ....*....|....
gi 1799935003   645 VCKVL---RQRLGV 655
Cdd:smart00487  153 LLKLLpknVQLLLL 166
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 501-651 6.89e-20

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 88.07  E-value: 6.89e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  501 RPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAF--LYHKNSGSVSLVISPLVSLMDDQVS-----GLPPCLKAVCIH 573
Cdd:pfam00270    1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALeaLDKLDNGPQALVLAPTRELAEQIYEelkklGKGLGLKVASLL 80

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1799935003  574 SNLSQSQREAAMEKVrngqaQILLLSPEALVasgsSSLFFRDRLPPVAFACLDEAHCISQWShnFRPAYLRVCKVLRQ 651
Cdd:pfam00270   81 GGDSRKEQLEKLKGP-----DILVGTPGRLL----DLLQERKLLKNLKLLVLDEAHRLLDMG--FGPDLEEILRRLPK 147
RecQL4_SLD2_NTD cd22289
N-terminal homeodomain-like domain of metazoan RecQ protein-like 4 (RecQL4), fungal DNA ...
 2-50 8.40e-19

N-terminal homeodomain-like domain of metazoan RecQ protein-like 4 (RecQL4), fungal DNA replication regulator SLD2 and similar proteins; RecQL4, also called ATP-dependent DNA helicase Q4, or DNA helicase, RecQ-like type 4 (RecQ4), or RTS, is a DNA-dependent ATPase that may modulate chromosome segregation. This family also includes fungal DNA replication regulator SLD2, also known as DNA replication and checkpoint protein 1 (DRC1), which functions with DPB11 to control DNA replication and the S-phase checkpoint. It is also required for the proper activation of RAD53 in response to DNA damage and replication blocks. This model corresponds to the N-terminal domain of RecQL4 and SLD2, which is a homeodomain-like DNA interaction motif.


Pssm-ID: 412085  Cd Length: 49  Bit Score: 80.75  E-value: 8.40e-19
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 1799935003    2 ERQQELKVLLKRWEAEFLRERRRKPSQADIEEAPEETRKLYKEYRMLKQ 50
Cdd:cd22289      1 ERLQELKIALKTWERAFAKKHGRKPTKDDIKAAPEEIKDLYKEYAKLKK 49
Drc1-Sld2 pfam11719
DNA replication and checkpoint protein; Genome duplication is precisely regulated by ...
 5-60 2.00e-07

DNA replication and checkpoint protein; Genome duplication is precisely regulated by cyclin-dependent kinases CDKs, which bring about the onset of S phase by activating replication origins and then prevent re-licensing of origins until mitosis is completed. The optimum sequence motif for CDK phosphorylation is S/T-P-K/R-K/R, and Drc1-Sld2 is found to have at least 11 potential phosphorylation sites. Drc1 is required for DNA synthesis and S-M replication checkpoint control. Drc1 associates with Cdc2 and is phosphorylated at the onset of S phase when Cdc2 is activated. Thus Cdc2 promotes DNA replication by phosphorylating Drc1 and regulating its association with Cut5. Sld2 and Sld3 represent the minimal set of S-CDK substrates required for DNA replication.


Pssm-ID: 371692 [Multi-domain]  Cd Length: 391  Bit Score: 54.84  E-value: 2.00e-07
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1799935003    5 QELKVLLKRWEAEFLRERRRKPSQADIEEAPeETRKLYKEYRMLKQQGKASDSSEK 60
Cdd:pfam11719    2 SQLKAEIKEWERAFAAKNGRKPSKDDIKKNP-EIAKKYKLYSKLKKGESIKTKTPS 56
PTZ00449 PTZ00449
104 kDa microneme/rhoptry antigen; Provisional
 21-282 5.15e-05

104 kDa microneme/rhoptry antigen; Provisional


Pssm-ID: 185628 [Multi-domain]  Cd Length: 943  Bit Score: 47.76  E-value: 5.15e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003   21 ERRRKPSQADIEEAPEETRKLYKEYRMLKQQGKASDSSektgSQEIPNVEQvEDSGFWGSHLNRAPKIPGKSRSG-SARP 99
Cdd:PTZ00449   531 EGEHEDSKESDEPKEGGKPGETKEGEVGKKPGPAKEHK----PSKIPTLSK-KPEFPKDPKHPKDPEEPKKPKRPrSAQR 605

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  100 GISAEFYGMKLKAKLGMTGKEP--PLTPRRTPNPRR--IPKIPQSQKNPEREAEASSPEPPRNEGESEKSGD-----AGK 170
Cdd:PTZ00449   606 PTRPKSPKLPELLDIPKSPKRPesPKSPKRPPPPQRpsSPERPEGPKIIKSPKPPKSPKPPFDPKFKEKFYDdyldaAAK 685

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  171 SGDPEKS----GEFSGLGPLTLPAgmNPGFP-----PVPDKFQRLKQSVAQTLRSLDpgwlqrcQESPENQEFPAGSVRE 241
Cdd:PTZ00449   686 SKETKTTvvldESFESILKETLPE--TPGTPfttprPLPPKLPRDEEFPFEPIGDPD-------AEQPDDIEFFTPPEEE 756

                          250       260       270       280       290
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1799935003  242 KGEIHTASIG----------------NSVRKRPREGGGAAEAPAKLQRGPQGSDPGI 282
Cdd:PTZ00449   757 RTFFHETPADtplpdilaeefkeediHAETGEPDEAMKRPDSPSEHEDKPPGDHPSL 813
ZnF_C2HC smart00343
zinc finger;
383-398 1.31e-03

zinc finger;


Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 37.04  E-value: 1.31e-03
                            10
                    ....*....|....*.
gi 1799935003   383 VCFRCGRKGHWASECR 398
Cdd:smart00343    1 KCYNCGKEGHIARDCP 16
PRK04537 PRK04537
ATP-dependent RNA helicase RhlB; Provisional
 777-1015 4.57e-03

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235307 [Multi-domain]  Cd Length: 572  Bit Score: 41.09  E-value: 4.57e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  777 YHAG-LSG--PERRR--IQRDFMGGRIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLF- 850
Cdd:PRK04537   282 YRVGvLSGdvPQKKResLLNRFQKGQLEILVATDVAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGDAISFa 361

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  851 LEPQGRDLPELRRHIYG----DSVDFWAIRKLLQRVFAPCKCLEIHGKLRDPPEDLEPESsgiLEFREREKRRlcRGHER 926
Cdd:PRK04537   362 CERYAMSLPDIEAYIEQkipvEPVTAELLTPLPRPPRVPVEGEEADDEAGDSVGTIFREA---REQRAAEEQR--RGGGR 436

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  927 CVPvaelvQALDLREEGENSGMRPGIRES--PPGPGIPGAVPAFPSRSDRDPPVLPGAASRQLPAAASCHRFPLPHPLLR 1004
Cdd:PRK04537   437 SGP-----GGGSRSGSVGGGGRRDGAGADgkPRPRRKPRVEGEADAAAAGAETPVVAAAAAQAPGVVAADGERAPRKRRR 511

                          250
                   ....*....|.
gi 1799935003 1005 RRPAAPGAGAE 1015
Cdd:PRK04537   512 RRNGRPVEGAE 522
zf-CCHC pfam00098
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 382-397 6.15e-03

Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eukaryotic gene regulation, such as C. elegans GLH-1. Structure is an 18-residue zinc finger.


Pssm-ID: 395050 [Multi-domain]  Cd Length: 18  Bit Score: 35.20  E-value: 6.15e-03
                           10
                   ....*....|....*.
gi 1799935003  382 DVCFRCGRKGHWASEC 397
Cdd:pfam00098    1 GKCYNCGEPGHIARDC 16
 
Name Accession Description Interval E-value
RecQ COG0514
Superfamily II DNA helicase RecQ [Replication, recombination and repair];
486-860 3.08e-109

Superfamily II DNA helicase RecQ [Replication, recombination and repair];


Pssm-ID: 440280 [Multi-domain]  Cd Length: 489  Bit Score: 352.91  E-value: 3.08e-109
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  486 EEVLEALRNL-GYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAFLyhkNSGsVSLVISPLVSLMDDQVSGLp 564
Cdd:COG0514      3 DDALEVLKRVfGYDSFRPGQEEIIEAVLAGRDALVVMPTGGGKSLCYQLPALL---LPG-LTLVVSPLIALMKDQVDALr 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  565 p-cLKAVCIHSNLSQSQREAAMEKVRNGQAQILLLSPEALVASGssslfFRDRLP--PVAFACLDEAHCISQWSHNFRPA 641
Cdd:COG0514     79 aagIRAAFLNSSLSAEERREVLRALRAGELKLLYVAPERLLNPR-----FLELLRrlKISLFAIDEAHCISQWGHDFRPD 153

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  642 YLRVcKVLRQRLG--------------VRcflgltatataataRDVAQHLGIPPEQ---GGGVRSaavpaNLLLSVS--M 702
Cdd:COG0514    154 YRRL-GELRERLPnvpvlaltatatprVR--------------ADIAEQLGLEDPRvfvGSFDRP-----NLRLEVVpkP 213

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  703 DADREQALLSLLRADPFGSChplIVFCTRREDTERLAALLRSQfpqfpphpkplgknpgkgktaGIpgfcSATAYHAGLS 782
Cdd:COG0514    214 PDDKLAQLLDFLKEHPGGSG---IVYCLSRKKVEELAEWLREA---------------------GI----RAAAYHAGLD 265

                          330       340       350       360       370       380       390
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1799935003  783 GPERRRIQRDFMGGRIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLFLEPQGRDLPE 860
Cdd:COG0514    266 AEEREANQDRFLRDEVDVIVATIAFGMGIDKPDVRFVIHYDLPKSIEAYYQEIGRAGRDGLPAEALLLYGPEDVAIQR 343
DEXHc_RecQ4-like cd18018
DEAH-box helicase domain of RecQ4 and similar proteins; ATP-dependent DNA helicase Q4 (RecQ4) ...
 489-681 5.85e-88

DEAH-box helicase domain of RecQ4 and similar proteins; ATP-dependent DNA helicase Q4 (RecQ4) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region. Mutations cause Rothmund-Thomson/RAPADILINO/Baller-Gerold syndrome.


Pssm-ID: 350776 [Multi-domain]  Cd Length: 201  Bit Score: 283.38  E-value: 5.85e-88
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  489 LEALRNL-GYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAFLYHKNSGSVSLVISPLVSLMDDQVSGLPPCL 567
Cdd:cd18018      1 LKLLRRVfGHPSFRPGQEEAIARLLSGRSTLVVLPTGAGKSLCYQLPALLLRRRGPGLTLVVSPLIALMKDQVDALPRAI 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  568 KAVCIHSNLSQSQREAAMEKVRNGQAQILLLSPEALVASGSSSLFFrdRLPPVAFACLDEAHCISQWSHNFRPAYLRVCK 647
Cdd:cd18018     81 KAAALNSSLTREERRRILEKLRAGEVKILYVSPERLVNESFRELLR--QTPPISLLVVDEAHCISEWSHNFRPDYLRLCR 158

                          170       180       190
                   ....*....|....*....|....*....|....
gi 1799935003  648 VLRQRLGVRCFLGLTATATAATARDVAQHLGIPP 681
Cdd:cd18018    159 VLRELLGAPPVLALTATATKRVVEDIASHLGIPE 192
recQ TIGR01389
ATP-dependent DNA helicase RecQ; The ATP-dependent DNA helicase RecQ of E. coli is about 600 ...
 493-865 3.29e-85

ATP-dependent DNA helicase RecQ; The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273594 [Multi-domain]  Cd Length: 591  Bit Score: 290.05  E-value: 3.29e-85
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  493 RNLGYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAFLYhknsGSVSLVISPLVSLMDDQVSGLPPC-LKAVC 571
Cdd:TIGR01389    7 RTFGYDDFRPGQEEIISHVLDGRDVLVVMPTGGGKSLCYQVPALLL----KGLTVVISPLISLMKDQVDQLRAAgVAAAY 82

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  572 IHSNLSQSQREAAMEKVRNGQAQILLLSPEALVasgssSLFFRDRL---PPVAFAcLDEAHCISQWSHNFRPAYLRVCkV 648
Cdd:TIGR01389   83 LNSTLSAKEQQDIEKALVNGELKLLYVAPERLE-----QDYFLNMLqriPIALVA-VDEAHCVSQWGHDFRPEYQRLG-S 155

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  649 LRQRLGVRCFLGLTATATAATARDVAQHLGI--PPEQgggVRSAAVPaNLLLSVSMDADREQALLSLLRADPFGSChplI 726
Cdd:TIGR01389  156 LAERFPQVPRIALTATADAETRQDIRELLRLadANEF---ITSFDRP-NLRFSVVKKNNKQKFLLDYLKKHRGQSG---I 228

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  727 VFCTRREDTERLAALLRSQfpqfpphpkplgknpgkgktaGIPgfcsATAYHAGLSGPERRRIQRDFMGGRIRVLVATVA 806
Cdd:TIGR01389  229 IYASSRKKVEELAERLESQ---------------------GIS----ALAYHAGLSNKVRAENQEDFLYDDVKVMVATNA 283

                          330       340       350       360       370
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1799935003  807 FGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLFLEPQgrDLPELRRHI 865
Cdd:TIGR01389  284 FGMGIDKPNVRFVIHYDMPGNLESYYQEAGRAGRDGLPAEAILLYSPA--DIALLKRRI 340
recQ_fam TIGR00614
ATP-dependent DNA helicase, RecQ family; All proteins in this family for which functions are ...
 496-863 3.77e-77

ATP-dependent DNA helicase, RecQ family; All proteins in this family for which functions are known are 3'-5' DNA-DNA helicases. These proteins are used for recombination, recombinational repair, and possibly maintenance of chromosome stability. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129701 [Multi-domain]  Cd Length: 470  Bit Score: 263.55  E-value: 3.77e-77
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  496 GYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAFLyhknSGSVSLVISPLVSLMDDQV-----SGLPPClkav 570
Cdd:TIGR00614    8 GLSSFRPVQLEVINAVLLGRDCFVVMPTGGGKSLCYQLPALY----SDGITLVISPLISLMEDQVlqlqaLGIPAT---- 79

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  571 CIHSNLSQSQREAAMEKVRNGQAQILLLSPEALvaSGSSSLFFR--DRLPPVAFAcLDEAHCISQWSHNFRPAYlRVCKV 648
Cdd:TIGR00614   80 FLNSAQTKEQQLNVLTDLKDGKIKLLYVTPEKI--SASNRLLQTleERKGITLIA-VDEAHCISQWGHDFRPDY-KALGS 155

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  649 LRQRLGVRCFLGLTATATAATARDVAQHLGIppeqgggvrsaavpaNLLLSVSMDADREQALLSLLR--ADPFGSCHPL- 725
Cdd:TIGR00614  156 LKQKFPNVPVMALTATASPSVREDILRQLNL---------------LNPQIFCTSFDRPNLYYEVRRktPKILEDLLRFi 220

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  726 ---------IVFCTRREDTERLAALLRSQfpqfpphpkplgknpgkgktaGIpgfcSATAYHAGLSGPERRRIQRDFMGG 796
Cdd:TIGR00614  221 rkefegksgIIYCPSRKKVEQVAAELQKL---------------------GL----AAGAYHAGLEDSARDDVQHKFQRD 275

                          330       340       350       360       370       380
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1799935003  797 RIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLFLEPQgrDLPELRR 863
Cdd:TIGR00614  276 EIQVVVATVAFGMGINKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECHLFYAPA--DMNRLRR 340
PRK11057 PRK11057
ATP-dependent DNA helicase RecQ; Provisional
 484-863 1.38e-69

ATP-dependent DNA helicase RecQ; Provisional


Pssm-ID: 182933 [Multi-domain]  Cd Length: 607  Bit Score: 245.78  E-value: 1.38e-69
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  484 PPEEVLEalRNLGYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAFLYhknsGSVSLVISPLVSLMDDQVSGL 563
Cdd:PRK11057    12 LAKQVLQ--ETFGYQQFRPGQQEIIDAVLSGRDCLVVMPTGGGKSLCYQIPALVL----DGLTLVVSPLISLMKDQVDQL 85

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  564 PP-CLKAVCIHSNLSQSQREAAMEKVRNGQAQILLLSPEALVASGssslfFRDRLP--PVAFACLDEAHCISQWSHNFRP 640
Cdd:PRK11057    86 LAnGVAAACLNSTQTREQQLEVMAGCRTGQIKLLYIAPERLMMDN-----FLEHLAhwNPALLAVDEAHCISQWGHDFRP 160

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  641 AYlRVCKVLRQRLGVRCFLGLTATATAATARDVAQHLGI--PPEQGGGVRSAAVPANLLlsvsmdaDREQALLSLLR--A 716
Cdd:PRK11057   161 EY-AALGQLRQRFPTLPFMALTATADDTTRQDIVRLLGLndPLIQISSFDRPNIRYTLV-------EKFKPLDQLMRyvQ 232

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  717 DPFGSCHplIVFCTRREDTERLAALLRSQfpqfpphpkplgknpgkgktaGIpgfcSATAYHAGLSGPERRRIQRDFMGG 796
Cdd:PRK11057   233 EQRGKSG--IIYCNSRAKVEDTAARLQSR---------------------GI----SAAAYHAGLDNDVRADVQEAFQRD 285

                          330       340       350       360       370       380
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1799935003  797 RIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLFLEPQgrDLPELRR 863
Cdd:PRK11057   286 DLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPA--DMAWLRR 350
DEXHc_RecQ cd17920
DEXH-box helicase domain of RecQ family proteins; The RecQ family of the type II DEAD box ...
 489-681 9.15e-60

DEXH-box helicase domain of RecQ family proteins; The RecQ family of the type II DEAD box helicase superfamily is a family of highly conserved DNA repair helicases. This domain contains the ATP-binding region.


Pssm-ID: 350678 [Multi-domain]  Cd Length: 200  Bit Score: 203.53  E-value: 9.15e-60
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  489 LEALRNL-GYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAFLYHKnsgsVSLVISPLVSLMDDQVSGLPP-C 566
Cdd:cd17920      1 EQILKEVfGYDEFRPGQLEAINAVLAGRDVLVVMPTGGGKSLCYQLPALLLDG----VTLVVSPLISLMQDQVDRLQQlG 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  567 LKAVCIHSNLSQSQREAAMEKVRNGQAQILLLSPEALVASGSSSLFFRD-RLPPVAFACLDEAHCISQWSHNFRPAYLRV 645
Cdd:cd17920     77 IRAAALNSTLSPEEKREVLLRIKNGQYKLLYVTPERLLSPDFLELLQRLpERKRLALIVVDEAHCVSQWGHDFRPDYLRL 156

                          170       180       190
                   ....*....|....*....|....*....|....*.
gi 1799935003  646 CKvLRQRLGVRCFLGLTATATAATARDVAQHLGIPP 681
Cdd:cd17920    157 GR-LRRALPGVPILALTATATPEVREDILKRLGLRN 191
DpdF NF041063
protein DpdF;
455-849 1.09e-46

protein DpdF;


Pssm-ID: 468990 [Multi-domain]  Cd Length: 813  Bit Score: 181.26  E-value: 1.09e-46
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  455 FPW-PEFSPSPPPAAVD-PLYSPAPDGTIPDPP-EEVLEALrnLGYDSFR-PGQAEAVMRILS---GlSTLVV-LPTGMG 526
Cdd:NF041063    94 RPWrPEWLDAAADDPPFeDVFAERLRRTLEPVPgDPFLAEA--LGFTHYRsPGQREAVRAALLappG-STLIVnLPTGSG 170

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  527 KSLCYQLPAfLYHKNSGSVSLVISPLVSLMDDQ-------VSGLPPCLKAVCI-HSNLSQSQREAAMEKVRNGQAQILLL 598
Cdd:NF041063   171 KSLVAQAPA-LLASRQGGLTLVVVPTVALAIDQerrarelLRRAGPDLGGPLAwHGGLSAEERAAIRQRIRDGTQRILFT 249

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  599 SPEALVASGSSSLF-------FRdrlppvAFAcLDEAHCISQWSHNFRPAYlrvckvlrQRLG--VRCFLGLTATATA-- 667
Cdd:NF041063   250 SPESLTGSLRPALFdaaeaglLR------YLV-VDEAHLVDQWGDGFRPEF--------QLLAglRRSLLRLAPSGRPfr 314

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  668 ---------ATARDVAQHLGIPPEQGGGVRSAAV---PANLLLSVSMDADREQALLSLLRADPfgscHPLIVFCTRREDT 735
Cdd:NF041063   315 tlllsatltESTLDTLETLFGPPGPFIVVSAVQLrpePAYWVAKCDSEEERRERVLEALRHLP----RPLILYVTKVEDA 390

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  736 ERLAALLRSQfpqfpphpkplgknpgkgktagipGFCSATAYHAGLSGPERRRIQRDFMGGRIRVLVATVAFGMGLDKAD 815
Cdd:NF041063   391 EAWLQRLRAA------------------------GFRRVALFHGDTPDAERERLIEQWRENELDIVVATSAFGLGMDKSD 446

                          410       420       430
                   ....*....|....*....|....*....|....
gi 1799935003  816 VRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHL 849
Cdd:NF041063   447 VRTVIHACVPETLDRFYQEVGRGGRDGKASLSLL 480
PLN03137 PLN03137
ATP-dependent DNA helicase; Q4-like; Provisional
 496-850 5.79e-44

ATP-dependent DNA helicase; Q4-like; Provisional


Pssm-ID: 215597 [Multi-domain]  Cd Length: 1195  Bit Score: 174.70  E-value: 5.79e-44
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  496 GYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAFLyhknSGSVSLVISPLVSLMDDQVSGLppclkavcIHSN 575
Cdd:PLN03137   457 GNHSFRPNQREIINATMSGYDVFVLMPTGGGKSLTYQLPALI----CPGITLVISPLVSLIQDQIMNL--------LQAN 524

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  576 LSQSQREAAME-----------KVRNGQAQILLLSPEALVASGS-----SSLFFRDRLppvAFACLDEAHCISQWSHNFR 639
Cdd:PLN03137   525 IPAASLSAGMEwaeqleilqelSSEYSKYKLLYVTPEKVAKSDSllrhlENLNSRGLL---ARFVIDEAHCVSQWGHDFR 601

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  640 PAYlRVCKVLRQRLGVRCFLGLTATATAATARDVAQHLGIppeqgggV-----RSAAVPANLLLSVS-------MDADRe 707
Cdd:PLN03137   602 PDY-QGLGILKQKFPNIPVLALTATATASVKEDVVQALGL-------VncvvfRQSFNRPNLWYSVVpktkkclEDIDK- 672

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  708 qallsLLRADPFGSCHplIVFCTRREDTERLAALLRSqfpqfpphpkplgknpgkgktagipgFCSATAYHAGLSGPERR 787
Cdd:PLN03137   673 -----FIKENHFDECG--IIYCLSRMDCEKVAERLQE--------------------------FGHKAAFYHGSMDPAQR 719

                          330       340       350       360       370       380
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1799935003  788 R-IQRDFMGGRIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLF 850
Cdd:PLN03137   720 AfVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECGRAGRDGQRSSCVLY 783
SF2_C_RecQ cd18794
C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an ...
 695-850 1.46e-43

C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an evolutionarily conserved class of enzymes, dedicated to preserving genomic integrity by operating in telomere maintenance, DNA repair, and replication. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350181 [Multi-domain]  Cd Length: 134  Bit Score: 154.67  E-value: 1.46e-43
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  695 NLLLSVSMDADREQALLSLLRADPFGSCHPLIVFCTRREDTERLAALLRSQfpqfpphpkplgknpgkgktaGIpgfcSA 774
Cdd:cd18794      3 NLFYSVRPKDKKDEKLDLLKRIKVEHLGGSGIIYCLSRKECEQVAARLQSK---------------------GI----SA 57

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1799935003  775 TAYHAGLSGPERRRIQRDFMGGRIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLF 850
Cdd:cd18794     58 AAYHAGLEPSDRRDVQRKWLRDKIQVIVATVAFGMGIDKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECILF 133
DEXHc_RecQ1 cd18015
DEXH-box helicase domain of RecQ1; ATP-dependent DNA helicase Q1 (RecQ1) is part of the RecQ ...
 486-642 2.83e-31

DEXH-box helicase domain of RecQ1; ATP-dependent DNA helicase Q1 (RecQ1) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350773 [Multi-domain]  Cd Length: 209  Bit Score: 122.47  E-value: 2.83e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  486 EEVLEALRN-LGYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAFLyhknSGSVSLVISPLVSLMDDQVSGLP 564
Cdd:cd18015      4 GKVKDTLKNvFKLEKFRPLQLETINATMAGRDVFLVMPTGGGKSLCYQLPALC----SDGFTLVVSPLISLMEDQLMALK 79

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  565 PC-LKAVCIHSNLSQSQREAAMEKVRNGQAQILLL--SPEALvasgSSSLFFRDRLPP------VAFACLDEAHCISQWS 635
Cdd:cd18015     80 KLgISATMLNASSSKEHVKWVHAALTDKNSELKLLyvTPEKI----AKSKRFMSKLEKaynagrLARIAIDEVHCCSQWG 155


                   ....*..
gi 1799935003  636 HNFRPAY 642
Cdd:cd18015    156 HDFRPDY 162
DEXHc_RecQ3 cd18017
DEAH-box helicase domain of RecQ3; DEAD-like helicase RecQ3 (also called Werner syndrome ...
 496-654 4.14e-29

DEAH-box helicase domain of RecQ3; DEAD-like helicase RecQ3 (also called Werner syndrome ATP-dependent helicase or WRN) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region. Mutations cause Werner's syndrome.


Pssm-ID: 350775 [Multi-domain]  Cd Length: 193  Bit Score: 115.64  E-value: 4.14e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  496 GYDSFRPGQAEAVMRIL-SGLSTLVVLPTGMGKSLCYQLPAFLyhknSGSVSLVISPLVSLMDDQV-----SGLPPCLka 569
Cdd:cd18017      9 GHSSFRPVQWKVIRSVLeERRDNLVVMATGYGKSLCYQYPSVL----LNSLTLVISPLISLMEDQVlqlvmSNIPACF-- 82

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  570 vcihsnLSQSQREAAMEKVRNGQAQILLLSPEaLVASGSSSLffRDRLPPVAFACLDEAHCISQWSHNFRPAYlRVCKVL 649
Cdd:cd18017     83 ------LGSAQSQNVLDDIKMGKIRVIYVTPE-FVSKGLELL--QQLRNGITLIAIDEAHCVSQWGHDFRSSY-RHLGSI 152


                   ....*
gi 1799935003  650 RQRLG 654
Cdd:cd18017    153 RNRLP 157
DEXHc_RecQ2_BLM cd18016
DEAH-box helicase domain of RecQ2; ATP-dependent DNA helicase Q2 (RecQ2, also called Bloom ...
 486-652 7.24e-29

DEAH-box helicase domain of RecQ2; ATP-dependent DNA helicase Q2 (RecQ2, also called Bloom syndrome protein homolog or BLM) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region. Mutations in RecQ2 cause Bloom syndrome.


Pssm-ID: 350774 [Multi-domain]  Cd Length: 208  Bit Score: 115.31  E-value: 7.24e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  486 EEVLEAL-RNLGYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAFLyhknSGSVSLVISPLVSLMDDQVSGLP 564
Cdd:cd18016      3 KEMMKIFhKKFGLHQFRTNQLEAINAALLGEDCFVLMPTGGGKSLCYQLPACV----SPGVTVVISPLRSLIVDQVQKLT 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  565 ----PClkavcihSNLSQSQREAAMEKV------RNGQAQILLLSPEALVASGS--SSLFFRDRLPPVAFACLDEAHCIS 632
Cdd:cd18016     79 sldiPA-------TYLTGDKTDAEATKIylqlskKDPIIKLLYVTPEKISASNRliSTLENLYERKLLARFVIDEAHCVS 151

                          170       180
                   ....*....|....*....|
gi 1799935003  633 QWSHNFRPAYLRVcKVLRQR 652
Cdd:cd18016    152 QWGHDFRPDYKRL-NMLRQK 170
DEXHc_RecQ5 cd18014
DEAH-box helicase domain of RecQ5; ATP-dependent DNA helicase Q5 (RecQ5) is part of the RecQ ...
 489-657 4.90e-27

DEAH-box helicase domain of RecQ5; ATP-dependent DNA helicase Q5 (RecQ5) is part of the RecQ family of highly conserved DNA repair helicases that is part of the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350772 [Multi-domain]  Cd Length: 205  Bit Score: 109.87  E-value: 4.90e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  489 LEALRN-LGYDSFR-PGQAEAVMRILSG-LSTLVVLPTGMGKSLCYQLPAFLYHKnsgsVSLVISPLVSLMDDQVSGLPP 565
Cdd:cd18014      1 RSTLKKvFGHSDFKsPLQEKATMAVVKGnKDVFVCMPTGAGKSLCYQLPALLAKG----ITIVISPLIALIQDQVDHLKT 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  566 C-LKAVCIHSNLSQSQREAAMEKVRNG--QAQILLLSPEaLVASGS-----SSLFFRDRLppvAFACLDEAHCISQWSHN 637
Cdd:cd18014     77 LkIRVDSLNSKLSAQERKRIIADLESEkpQTKFLYITPE-MAATSSfqpllSSLVSRNLL---SYLVVDEAHCVSQWGHD 152

                          170       180
                   ....*....|....*....|.
gi 1799935003  638 FRPAYLRVcKVLRQRLG-VRC 657
Cdd:cd18014    153 FRPDYLRL-GALRSRYGhVPW 172
YprA COG1205
ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, ...
 464-845 1.13e-21

ATP-dependent helicase YprA, contains C-terminal metal-binding DUF1998 domain [Replication, recombination and repair];


Pssm-ID: 440818 [Multi-domain]  Cd Length: 758  Bit Score: 101.84  E-value: 1.13e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  464 PPPAAVdplYSPAPDGTipdpPEEVLEALRNLGYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAFL-YHKNS 542
Cdd:COG1205     28 PAREAR---YAPWPDWL----PPELRAALKKRGIERLYSHQAEAIEAARAGKNVVIATPTASGKSLAYLLPVLEaLLEDP 100

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  543 GSVSLVISPLVSLMDDQVS-------GLPPCLKAVCIHSNLSQSQREAAMEkvrngQAQILLLSPEALvasgSSSL---- 611
Cdd:COG1205    101 GATALYLYPTKALARDQLRrlrelaeALGLGVRVATYDGDTPPEERRWIRE-----HPDIVLTNPDML----HYGLlphh 171

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  612 -----FFRdRLppvAFACLDEAHcisqwshnfrpAY---------------LRVCKVLR-------------------QR 652
Cdd:COG1205    172 trwarFFR-NL---RYVVIDEAH-----------TYrgvfgshvanvlrrlRRICRHYGsdpqfilasatignpaehaER 236

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  653 L-GVRCFLgLTATATAATARDVAqhLGIPPEQGGGVR-SAAVPANLLLSvsmdadreqallSLLRADpfgscHPLIVFCT 730
Cdd:COG1205    237 LtGRPVTV-VDEDGSPRGERTFV--LWNPPLVDDGIRrSALAEAARLLA------------DLVREG-----LRTLVFTR 296

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  731 RREDTERLAALLRSQfpqfpphpkpLGKNPGKGKTAgipgfcsatAYHAGLSGPERRRIQRDFMGGRIRVLVATVAFGMG 810
Cdd:COG1205    297 SRRGAELLARYARRA----------LREPDLADRVA---------AYRAGYLPEERREIERGLRSGELLGVVSTNALELG 357

                          410       420       430
                   ....*....|....*....|....*....|....*
gi 1799935003  811 LDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAA 845
Cdd:COG1205    358 IDIGGLDAVVLAGYPGTRASFWQQAGRAGRRGQDS 392
DEXDc smart00487
DEAD-like helicases superfamily;
492-655 4.59e-20

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 89.86  E-value: 4.59e-20
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003   492 LRNLGYDSFRPGQAEAVMRILSGL-STLVVLPTGMGKSLCYQLPAFLY-HKNSGSVSLVISPLVSLMDDQVS-----GLP 564
Cdd:smart00487    1 IEKFGFEPLRPYQKEAIEALLSGLrDVILAAPTGSGKTLAALLPALEAlKRGKGGRVLVLVPTRELAEQWAEelkklGPS 80

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003   565 PCLKAVCIHSNLSqsqREAAMEKVRNGQAQILLLSPEALVASGSSSLFFRDRlppVAFACLDEAHCISQWshNFRPAYLR 644
Cdd:smart00487   81 LGLKVVGLYGGDS---KREQLRKLESGKTDILVTTPGRLLDLLENDKLSLSN---VDLVILDEAHRLLDG--GFGDQLEK 152

                           170
                    ....*....|....
gi 1799935003   645 VCKVL---RQRLGV 655
Cdd:smart00487  153 LLKLLpknVQLLLL 166
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 501-651 6.89e-20

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 88.07  E-value: 6.89e-20
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  501 RPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAF--LYHKNSGSVSLVISPLVSLMDDQVS-----GLPPCLKAVCIH 573
Cdd:pfam00270    1 TPIQAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALeaLDKLDNGPQALVLAPTRELAEQIYEelkklGKGLGLKVASLL 80

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1799935003  574 SNLSQSQREAAMEKVrngqaQILLLSPEALVasgsSSLFFRDRLPPVAFACLDEAHCISQWShnFRPAYLRVCKVLRQ 651
Cdd:pfam00270   81 GGDSRKEQLEKLKGP-----DILVGTPGRLL----DLLQERKLLKNLKLLVLDEAHRLLDMG--FGPDLEEILRRLPK 147
HELICc smart00490
helicase superfamily c-terminal domain;
773-842 1.52e-19

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 84.19  E-value: 1.52e-19
                            10        20        30        40        50        60        70
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003   773 SATAYHAGLSGPERRRIQRDFMGGRIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDG 842
Cdd:smart00490   13 KVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82
RecQL4_SLD2_NTD cd22289
N-terminal homeodomain-like domain of metazoan RecQ protein-like 4 (RecQL4), fungal DNA ...
 2-50 8.40e-19

N-terminal homeodomain-like domain of metazoan RecQ protein-like 4 (RecQL4), fungal DNA replication regulator SLD2 and similar proteins; RecQL4, also called ATP-dependent DNA helicase Q4, or DNA helicase, RecQ-like type 4 (RecQ4), or RTS, is a DNA-dependent ATPase that may modulate chromosome segregation. This family also includes fungal DNA replication regulator SLD2, also known as DNA replication and checkpoint protein 1 (DRC1), which functions with DPB11 to control DNA replication and the S-phase checkpoint. It is also required for the proper activation of RAD53 in response to DNA damage and replication blocks. This model corresponds to the N-terminal domain of RecQL4 and SLD2, which is a homeodomain-like DNA interaction motif.


Pssm-ID: 412085  Cd Length: 49  Bit Score: 80.75  E-value: 8.40e-19
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 1799935003    2 ERQQELKVLLKRWEAEFLRERRRKPSQADIEEAPEETRKLYKEYRMLKQ 50
Cdd:cd22289      1 ERLQELKIALKTWERAFAKKHGRKPTKDDIKAAPEEIKDLYKEYAKLKK 49
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 705-842 1.06e-17

Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 79.95  E-value: 1.06e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  705 DREQALLSLLRADPFGSChplIVFCTRREDTErlAALLRsqfpqfpphpkplgknpgkgKTAGIpgfcSATAYHAGLSGP 784
Cdd:pfam00271    1 EKLEALLELLKKERGGKV---LIFSQTKKTLE--AELLL--------------------EKEGI----KVARLHGDLSQE 51

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1799935003  785 ERRRIQRDFMGGRIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDG 842
Cdd:pfam00271   52 EREEILEDFRKGKIDVLVATDVAERGLDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 700-851 1.65e-17

C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 80.24  E-value: 1.65e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  700 VSMDADREQALLSLLRADPFGSChplIVFCTRREDTERLAALLRSqfpqfpphpkplgknpgkgktAGIPgfcsATAYHA 779
Cdd:cd18787      8 VEEEEKKLLLLLLLLEKLKPGKA---IIFVNTKKRVDRLAELLEE---------------------LGIK----VAALHG 59

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1799935003  780 GLSGPERRRIQRDFMGGRIRVLVAT-VAfGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLFL 851
Cdd:cd18787     60 DLSQEERERALKKFRSGKVRVLVATdVA-ARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
703-917 2.61e-17

Superfamily II DNA and RNA helicase [Replication, recombination and repair];


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 85.97  E-value: 2.61e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  703 DADREQALLSLLRADPFGSChplIVFCTRREDTERLAALLRSQfpqfpphpkplgknpgkgktagipGFcSATAYHAGLS 782
Cdd:COG0513    225 KRDKLELLRRLLRDEDPERA---IVFCNTKRGADRLAEKLQKR------------------------GI-SAAALHGDLS 276

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  783 GPERRRIQRDFMGGRIRVLVAT-VAfGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLFLEPqgRDLPEL 861
Cdd:COG0513    277 QGQRERALDAFRNGKIRVLVATdVA-ARGIDIDDVSHVINYDLPEDPEDYVHRIGRTGRAGAEGTAISLVTP--DERRLL 353

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1799935003  862 RRhiygdsvdfwaIRKLLQRVFapcKCLEIHGKLRDPPEDLEPESSGILEFREREK 917
Cdd:COG0513    354 RA-----------IEKLIGQKI---EEEELPGFEPVEEKRLERLKPKIKEKLKGKK 395
SF2_C_Hrq cd18797
C-terminal helicase domain of HrQ family helicases; Yeast Hrq1, similar to RecQ4, plays a role ...
 726-845 3.45e-15

C-terminal helicase domain of HrQ family helicases; Yeast Hrq1, similar to RecQ4, plays a role in DNA inter-strand crosslink (ICL) repair and in telomere maintenance. Hrq1 lacks the Sld2-like domain found in RecQ4. HrQ family helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350184 [Multi-domain]  Cd Length: 146  Bit Score: 73.83  E-value: 3.45e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  726 IVFCTRREDTERLAALLRSQFPqfpphpkplGKNPGKGKTAgipgfcsatAYHAGLSGPERRRIQRDFMGGRIRVLVATV 805
Cdd:cd18797     39 IVFCRSRKLAELLLRYLKARLV---------EEGPLASKVA---------SYRAGYLAEDRREIEAELFNGELLGVVATN 100

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|
gi 1799935003  806 AFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAA 845
Cdd:cd18797    101 ALELGIDIGGLDAVVLAGYPGSLASLWQQAGRAGRRGKDS 140
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 517-655 1.16e-11

N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily 2 helicases comprise a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This N-terminal domain contains the ATP-binding region.


Pssm-ID: 350668 [Multi-domain]  Cd Length: 146  Bit Score: 63.96  E-value: 1.16e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  517 TLVVLPTGMGKSLCYQLPAFLYHKNSGSVSLVISPLVSLMDDQVSGL----PPCLKAVCIHSNLSQSQREAAmekvRNGQ 592
Cdd:cd00046      4 VLITAPTGSGKTLAALLAALLLLLKKGKKVLVLVPTKALALQTAERLrelfGPGIRVAVLVGGSSAEEREKN----KLGD 79

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1799935003  593 AQILLLSPEALVASGSSSLffRDRLPPVAFACLDEAHCISQWSHNFRPAYLRVCKVLRQRLGV 655
Cdd:cd00046     80 ADIIIATPDMLLNLLLRED--RLFLKDLKLIIVDEAHALLIDSRGALILDLAVRKAGLKNAQV 140
DEXHc_Hrq1-like cd17923
DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a ...
 504-629 5.04e-11

DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a role in DNA inter-strand crosslink (ICL) repair and in telomere maintenance. Hrq1 lacks the Sld2-like domain found in RecQ4. Hrq1 belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350681 [Multi-domain]  Cd Length: 182  Bit Score: 62.99  E-value: 5.04e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  504 QAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAF--LYhKNSGSVSLVISPLVSLMDDQVSGL----PPCLKAVCIHSNLS 577
Cdd:cd17923      5 QAEAIEAARAGRSVVVTTGTASGKSLCYQLPILeaLL-RDPGSRALYLYPTKALAQDQLRSLrellEQLGLGIRVATYDG 83

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1799935003  578 QSQREAAmEKVRNGQAQILLLSPEALvasgSSSLFFRDRLPP-----VAFACLDEAH 629
Cdd:cd17923     84 DTPREER-RAIIRNPPRILLTNPDML----HYALLPHHDRWArflrnLRYVVLDEAH 135
PLN00206 PLN00206
DEAD-box ATP-dependent RNA helicase; Provisional
 481-861 3.69e-10

DEAD-box ATP-dependent RNA helicase; Provisional


Pssm-ID: 215103 [Multi-domain]  Cd Length: 518  Bit Score: 64.04  E-value: 3.69e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  481 IPDP---------PEEVLEALRNLGYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAF----LYH-----KNS 542
Cdd:PLN00206   116 VPPPilsfsscglPPKLLLNLETAGYEFPTPIQMQAIPAALSGRSLLVSADTGSGKTASFLVPIIsrccTIRsghpsEQR 195

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  543 GSVSLVISP---LVSLMDDQVS----GLPpcLKAVCIHSNLSQSQReaaMEKVRNGqAQILLLSPEALVasgssSLFFRD 615
Cdd:PLN00206   196 NPLAMVLTPtreLCVQVEDQAKvlgkGLP--FKTALVVGGDAMPQQ---LYRIQQG-VELIVGTPGRLI-----DLLSKH 264

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  616 --RLPPVAFACLDEAHCISQwshnfrpaylrvckvlrqrlgvRCFlgltatataataRDVAQHLgippeqgggVRSAAVP 693
Cdd:PLN00206   265 diELDNVSVLVLDEVDCMLE----------------------RGF------------RDQVMQI---------FQALSQP 301

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  694 ANLLLSVSMDADREQALLSLLRA----------DPFGSCHPLIVFCTRREDTERLAALLRSQFPQFPPHPKPLGKNPGK- 762
Cdd:PLN00206   302 QVLLFSATVSPEVEKFASSLAKDiilisignpnRPNKAVKQLAIWVETKQKKQKLFDILKSKQHFKPPAVVFVSSRLGAd 381

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  763 ------GKTAGIpgfcSATAYHAGLSGPERRRIQRDFMGGRIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVG 836
Cdd:PLN00206   382 llanaiTVVTGL----KALSIHGEKSMKERREVMKSFLVGEVPVIVATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIG 457

                          410       420
                   ....*....|....*....|....*.
gi 1799935003  837 RAGRDGSAARCHLFLEPQGRDL-PEL 861
Cdd:PLN00206   458 RASRMGEKGTAIVFVNEEDRNLfPEL 483
BRR2 COG1204
Replicative superfamily II helicase [Replication, recombination and repair];
484-840 5.21e-10

Replicative superfamily II helicase [Replication, recombination and repair];


Pssm-ID: 440817 [Multi-domain]  Cd Length: 529  Bit Score: 63.76  E-value: 5.21e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  484 PPEEVLEALRNLGYDSFRPGQAEAVMR-ILSGLSTLVVLPTGMGKSLCYQLpAFLYHKNSGSVSLVISPLVSLMDDQVSG 562
Cdd:COG1204      7 PLEKVIEFLKERGIEELYPPQAEALEAgLLEGKNLVVSAPTASGKTLIAEL-AILKALLNGGKALYIVPLRALASEKYRE 85

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  563 LPPCLKAVCIHSNLSQSQREAAMEKVrnGQAQILLLSPE---ALVASGSSslFFRDrlppvaFACL--DEAHCISQWShn 637
Cdd:COG1204     86 FKRDFEELGIKVGVSTGDYDSDDEWL--GRYDILVATPEkldSLLRNGPS--WLRD------VDLVvvDEAHLIDDES-- 153

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  638 fRPAYLRVC--KVLRQRLGVRcFLGLtaTATAATARDVAQHLGIPPeqgggVRSAAVPANLLLSVSMDA----------- 704
Cdd:COG1204    154 -RGPTLEVLlaRLRRLNPEAQ-IVAL--SATIGNAEEIAEWLDAEL-----VKSDWRPVPLNEGVLYDGvlrfddgsrrs 224

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  705 -DREQAL-LSLLRADpfGSChplIVFCTRREDTERLAALLRSQFPQFPPHPKplgknpgKGKTAGIPGFCSAT------- 775
Cdd:COG1204    225 kDPTLALaLDLLEEG--GQV---LVFVSSRRDAESLAKKLADELKRRLTPEE-------REELEELAEELLEVseethtn 292

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  776 -----------AYH-AGLSGPERRRIQRDFMGGRIRVLVAT--VAFGMGLDK-----ADVRGIVHYNIPgNLEsYVQEVG 836
Cdd:COG1204    293 ekladclekgvAFHhAGLPSELRRLVEDAFREGLIKVLVATptLAAGVNLPArrviiRDTKRGGMVPIP-VLE-FKQMAG 370


                   ....
gi 1799935003  837 RAGR 840
Cdd:COG1204    371 RAGR 374
SF2_C_Ski2 cd18795
C-terminal helicase domain of the Ski2 family helicases; Ski2-like RNA helicases play an ...
 723-842 4.67e-09

C-terminal helicase domain of the Ski2 family helicases; Ski2-like RNA helicases play an important role in RNA degradation, processing, and splicing pathways. This family includes spliceosomal Brr2 RNA helicase, ASCC3 (involved in the repair of N-alkylated nucleotides), Mtr4 (involved in processing of structured RNAs), DDX60 (involved in viral RNA degradation), and other proteins. Ski2-like RNA helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350182 [Multi-domain]  Cd Length: 154  Bit Score: 56.41  E-value: 4.67e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  723 HPLIVFC-TRREdTERLAALLrsqfpqfpphpkplgknpgkgktAGIpGFcsataYHAGLSGPERRRIQRDFMGGRIRVL 801
Cdd:cd18795     44 KPVLVFCsSRKE-CEKTAKDL-----------------------AGI-AF-----HHAGLTREDRELVEELFREGLIKVL 93

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*....
gi 1799935003  802 VATVAFGMGLD----KADVRGIVHYNIPGNLE----SYVQEVGRAGRDG 842
Cdd:cd18795     94 VATSTLAAGVNlparTVIIKGTQRYDGKGYRElsplEYLQMIGRAGRPG 142
SF2_C cd18785
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ...
 800-850 9.25e-09

C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases include DEAD-box helicases, UvrB, RecG, Ski2, Sucrose Non-Fermenting (SNF) family helicases, and dicer proteins, among others. Similar to SF1 helicases, they do not form toroidal structures like SF3-6 helicases. SF2 helicases are a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Their helicase core is surrounded by C- and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains, or domains engaged in protein-protein interactions. The core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350172 [Multi-domain]  Cd Length: 77  Bit Score: 53.48  E-value: 9.25e-09
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|..
gi 1799935003  800 VLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGS-AARCHLF 850
Cdd:cd18785     25 ILVATNVLGEGIDVPSLDTVIFFDPPSSAASYIQRVGRAGRGGKdEGEVILF 76
PTZ00110 PTZ00110
helicase; Provisional
 485-863 6.15e-08

helicase; Provisional


Pssm-ID: 240273 [Multi-domain]  Cd Length: 545  Bit Score: 57.09  E-value: 6.15e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  485 PEEVLEALRNLGYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAF-------LYHKNSGSVSLVISP---LVS 554
Cdd:PTZ00110   138 PDYILKSLKNAGFTEPTPIQVQGWPIALSGRDMIGIAETGSGKTLAFLLPAIvhinaqpLLRYGDGPIVLVLAPtreLAE 217

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  555 LMDDQ--VSGLPPCLKAVCIHSNLSQSQREAAMekvRNGqAQILLLSPEALVASGSSSLffrDRLPPVAFACLDEAHciS 632
Cdd:PTZ00110   218 QIREQcnKFGASSKIRNTVAYGGVPKRGQIYAL---RRG-VEILIACPGRLIDFLESNV---TNLRRVTYLVLDEAD--R 288

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  633 QWSHNFRPAYLRVCKVLRQRLGVRCFLGLTATATAATARDVAQHlgIPPEQGGGVRSAAVPANLLLSVSMDADREQ-ALL 711
Cdd:PTZ00110   289 MLDMGFEPQIRKIVSQIRPDRQTLMWSATWPKEVQSLARDLCKE--EPVHVNVGSLDLTACHNIKQEVFVVEEHEKrGKL 366

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  712 SLLRADPFGSCHPLIVFCTRREDTERLAALLRSQfpqfpphpkplgknpgkgktaGIPGFCsataYHAGLSGPERRRIQR 791
Cdd:PTZ00110   367 KMLLQRIMRDGDKILIFVETKKGADFLTKELRLD---------------------GWPALC----IHGDKKQEERTWVLN 421

                          330       340       350       360       370       380       390
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1799935003  792 DFMGGRIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLFLEPQ----GRDLPELRR 863
Cdd:PTZ00110   422 EFKTGKSPIMIATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGASYTFLTPDkyrlARDLVKVLR 497
DDXDc_reverse_gyrase cd17924
DDXD-box helicase domain of reverse gyrase; Reverse gyrase modifies the topological state of ...
 510-616 7.02e-08

DDXD-box helicase domain of reverse gyrase; Reverse gyrase modifies the topological state of DNA by introducing positive supercoils in an ATP-dependent process. Reverse gyrase belongs to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350682 [Multi-domain]  Cd Length: 189  Bit Score: 53.87  E-value: 7.02e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  510 RILSGLSTLVVLPTGMGKSlCYQLPAFLYHKNSGSVSLVISPLVSLM-------DDQVSGLPPCLKAVCIHSNLSQSQRE 582
Cdd:cd17924     28 RLLRGKSFAIIAPTGVGKT-TFGLATSLYLASKGKRSYLIFPTKSLVkqayerlSKYAEKAGVEVKILVYHSRLKKKEKE 106

                           90       100       110
                   ....*....|....*....|....*....|....
gi 1799935003  583 AAMEKVRNGQAQILLlspealvasgSSSLFFRDR 616
Cdd:cd17924    107 ELLEKIEKGDFDILV----------TTNQFLSKN 130
PTZ00424 PTZ00424
helicase 45; Provisional
 778-864 1.85e-07

helicase 45; Provisional


Pssm-ID: 185609 [Multi-domain]  Cd Length: 401  Bit Score: 54.83  E-value: 1.85e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  778 HAGLSGPERRRIQRDFMGGRIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLFLEPQGRD 857
Cdd:PTZ00424   298 HGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVINYDLPASPENYIHRIGRSGRFGRKGVAINFVTPDDIE 377


                   ....*...
gi 1799935003  858 -LPELRRH 864
Cdd:PTZ00424   378 qLKEIERH 385
PRK11634 PRK11634
ATP-dependent RNA helicase DeaD; Provisional
 796-858 1.91e-07

ATP-dependent RNA helicase DeaD; Provisional


Pssm-ID: 236941 [Multi-domain]  Cd Length: 629  Bit Score: 55.62  E-value: 1.91e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1799935003  796 GRIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLFLEPQGRDL 858
Cdd:PRK11634   294 GRLDILIATDVAARGLDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRALLFVENRERRL 356
Drc1-Sld2 pfam11719
DNA replication and checkpoint protein; Genome duplication is precisely regulated by ...
 5-60 2.00e-07

DNA replication and checkpoint protein; Genome duplication is precisely regulated by cyclin-dependent kinases CDKs, which bring about the onset of S phase by activating replication origins and then prevent re-licensing of origins until mitosis is completed. The optimum sequence motif for CDK phosphorylation is S/T-P-K/R-K/R, and Drc1-Sld2 is found to have at least 11 potential phosphorylation sites. Drc1 is required for DNA synthesis and S-M replication checkpoint control. Drc1 associates with Cdc2 and is phosphorylated at the onset of S phase when Cdc2 is activated. Thus Cdc2 promotes DNA replication by phosphorylating Drc1 and regulating its association with Cut5. Sld2 and Sld3 represent the minimal set of S-CDK substrates required for DNA replication.


Pssm-ID: 371692 [Multi-domain]  Cd Length: 391  Bit Score: 54.84  E-value: 2.00e-07
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1799935003    5 QELKVLLKRWEAEFLRERRRKPSQADIEEAPeETRKLYKEYRMLKQQGKASDSSEK 60
Cdd:pfam11719    2 SQLKAEIKEWERAFAAKNGRKPSKDDIKKNP-EIAKKYKLYSKLKKGESIKTKTPS 56
SF2_C_dicer cd18802
C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave ...
 726-843 2.10e-06

C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave double-stranded RNA (dsRNA) precursors to generate microRNAs (miRNAs) and small interfering RNAs (siRNAs). In concert with Argonautes, these small RNAs bind complementary mRNAs to down-regulate their expression. miRNAs are processed by Dicer from small hairpins, while siRNAs are typically processed from longer dsRNA, from endogenous sources, or exogenous sources such as viral replication intermediates. Some organisms, such as Homo sapiens and Caenorhabditis elegans, encode one Dicer that generates miRNAs and siRNAs, but other organisms have multiple dicers with specialized functions. Dicer exists throughout eukaryotes, and a subset has an N-terminal helicase domain of the RIG-I-like receptor (RLR) subgroup. RLRs often function in innate immunity and Dicer helicase domains sometimes show differences in activity that correlate with roles in immunity. Dicer helicase domains are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350189 [Multi-domain]  Cd Length: 142  Bit Score: 48.74  E-value: 2.10e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  726 IVFCTRReDTERLAALLRSQFPQFPPHPKP---LGKNPGKGKTAgipgfcsatayhAGLSGPERRRIQRDFMGGRIRVLV 802
Cdd:cd18802     29 IIFVERR-ATAVVLSRLLKEHPSTLAFIRCgflIGRGNSSQRKR------------SLMTQRKQKETLDKFRDGELNLLI 95

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|.
gi 1799935003  803 ATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGS 843
Cdd:cd18802     96 ATSVLEEGIDVPACNLVIRFDLPKTLRSYIQSRGRARAPNS 136
PRK09751 PRK09751
putative ATP-dependent helicase Lhr; Provisional
 726-858 2.42e-06

putative ATP-dependent helicase Lhr; Provisional


Pssm-ID: 137505 [Multi-domain]  Cd Length: 1490  Bit Score: 52.23  E-value: 2.42e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  726 IVFCTRREDTERLAALLR----SQFPQFPPHPKPLGK-----NPGKGKTAGIPGFCsATAYHAGLSGPERRRIQRDFMGG 796
Cdd:PRK09751   248 IVFTNSRGLAEKLTARLNelyaARLQRSPSIAVDAAHfestsGATSNRVQSSDVFI-ARSHHGSVSKEQRAITEQALKSG 326

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1799935003  797 RIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLFLEPQGRDL 858
Cdd:PRK09751   327 ELRCVVATSSLELGIDMGAVDLVIQVATPLSVASGLQRIGRAGHQVGGVSKGLFFPRTRRDL 388
PRK10590 PRK10590
ATP-dependent RNA helicase RhlE; Provisional
 773-840 3.34e-06

ATP-dependent RNA helicase RhlE; Provisional


Pssm-ID: 236722 [Multi-domain]  Cd Length: 456  Bit Score: 51.35  E-value: 3.34e-06
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1799935003  773 SATAYHAGLSGPERRRIQRDFMGGRIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGR 840
Cdd:PRK10590   271 RSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARGLDIEELPHVVNYELPNVPEDYVHRIGRTGR 338
SF2_C_LHR cd18796
C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a ...
 687-852 4.35e-06

C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a DNA damage-inducible helicase that uses ATP hydrolysis to drive unidirectional 3'-to-5' translocation along single-stranded DNA (ssDNA) and to unwind RNA:DNA duplexes. This group also includes related bacterial and archaeal helicases. LHR family helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350183 [Multi-domain]  Cd Length: 150  Bit Score: 48.03  E-value: 4.35e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  687 VRSAAVPANLLLSVSMDADREQALLSLLRADpfGSChplIVFCTRREDTERLAALLRSQFPQ-FPPHPKPlgknpgkgkt 765
Cdd:cd18796      8 VILPVAPEIFPWAGESGADAYAEVIFLLERH--KST---LVFTNTRSQAERLAQRLRELCPDrVPPDFIA---------- 72

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  766 agipgfcsatAYHAGLSGPERRRIQRDFMGGRIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAG-RDGSA 844
Cdd:cd18796     73 ----------LHHGSLSRELREEVEAALKRGDLKVVVATSSLELGIDIGDVDLVIQIGSPKSVARLLQRLGRSGhRPGAA 142


                   ....*...
gi 1799935003  845 ARCHLFLE 852
Cdd:cd18796    143 SKGRLVPT 150
COG1202 COG1202
Superfamily II helicase, archaea-specific [Replication, recombination and repair];
773-812 1.12e-05

Superfamily II helicase, archaea-specific [Replication, recombination and repair];


Pssm-ID: 440815 [Multi-domain]  Cd Length: 790  Bit Score: 49.89  E-value: 1.12e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|
gi 1799935003  773 SATAYHAGLSGPERRRIQRDFMGGRIRVLVATVAFGMGLD 812
Cdd:COG1202    450 KAAPYHAGLDYGERKKVERRFADQELAAVVTTAALAAGVD 489
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
501-934 1.43e-05

Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 49.25  E-value: 1.43e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  501 RPGQAEAVMRILSGLST-----LVVLPTGMGKSLcyqLPAFLYHK-NSGSVSLVISPLVSLMDDQVSglppCLKAVCIHS 574
Cdd:COG1061     82 RPYQQEALEALLAALERgggrgLVVAPTGTGKTV---LALALAAElLRGKRVLVLVPRRELLEQWAE----ELRRFLGDP 154

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  575 NLSQSQREAamekvrngQAQILLLSPEALVASGSSSLFFRDRlppvAFACLDEAHcisqwsHNFRPAYLRVckvlRQRLG 654
Cdd:COG1061    155 LAGGGKKDS--------DAPITVATYQSLARRAHLDELGDRF----GLVIIDEAH------HAGAPSYRRI----LEAFP 212

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  655 VRCFLGL--------TATATAATARDVAQHLGIPPEQGGGV------------------RSAAVPANLLLSVSMDADREQ 708
Cdd:COG1061    213 AAYRLGLtatpfrsdGREILLFLFDGIVYEYSLKEAIEDGYlappeyygirvdltderaEYDALSERLREALAADAERKD 292

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  709 ALLSLLRADpFGSCHPLIVFCTRREDTERLAALLRSqfpqfpphpkplgknpgkgktAGIPgfcsATAYHAGLSGPERRR 788
Cdd:COG1061    293 KILRELLRE-HPDDRKTLVFCSSVDHAEALAELLNE---------------------AGIR----AAVVTGDTPKKEREE 346

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  789 IQRDFMGGRIRVLVATVAFGMGLD--KADVrGIVHYNIpGNLESYVQEVGRAGRDGSAARCHLFLEPQGRDLPELRRHiy 866
Cdd:COG1061    347 ILEAFRDGELRILVTVDVLNEGVDvpRLDV-AILLRPT-GSPREFIQRLGRGLRPAPGKEDALVYDFVGNDVPVLEEL-- 422

                          410       420       430       440       450       460
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1799935003  867 gdsvdFWAIRKLLQRVFAPCKCLEIHGKLRDPPEDLEPESSGILEFREREKRRLCRGHERCVPVAELV 934
Cdd:COG1061    423 -----AKDLRDLAGYRVEFLDEEESEELALLIAVKPALEVKGELEEELLEELELLEDALLLVLAELLL 485
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
567-596 2.59e-05

Superfamily II DNA and RNA helicase [Replication, recombination and repair];


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 48.22  E-value: 2.59e-05
                           10        20        30
                   ....*....|....*....|....*....|
gi 1799935003  567 LKAVCIHSNLSQSQREAAMEKVRNGQAQIL 596
Cdd:COG0513    266 ISAAALHGDLSQGQRERALDAFRNGKIRVL 295
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 533-597 3.00e-05

Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 44.51  E-value: 3.00e-05
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1799935003  533 LPAFLYHKNSGSVsLVISPLVSLMDDQVSGLPPCLKAVCIHSNLSQSQREAAMEKVRNGQAQILL 597
Cdd:pfam00271    6 LLELLKKERGGKV-LIFSQTKKTLEAELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLV 69
DEADc_DDX43_DDX53 cd17958
DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis ...
 488-606 3.05e-05

DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis antigen 13 or helical antigen) displays tumor-specific expression. Diseases associated with DDX43 include rheumatoid lung disease. DDX53 is also called cancer/testis antigen 26 or DEAD-Box Protein CAGE. Both DDX46 and DDX53 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350716 [Multi-domain]  Cd Length: 197  Bit Score: 46.30  E-value: 3.05e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  488 VLEALRNLGYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAFL--------YHKNSGSVSLVISP---LVSLM 556
Cdd:cd17958      1 IMKEIKKQGFEKPSPIQSQAWPIILQGIDLIGVAQTGTGKTLAYLLPGFIhldlqpipREQRNGPGVLVLTPtreLALQI 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1799935003  557 DDQVSG-LPPCLKAVCIHSNlsqsqreaameKVRNGQAQILLLSPEALVAS 606
Cdd:cd17958     81 EAECSKySYKGLKSVCVYGG-----------GNRNEQIEDLSKGVDIIIAT 120
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 567-597 4.36e-05

C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 44.42  E-value: 4.36e-05
                           10        20        30
                   ....*....|....*....|....*....|.
gi 1799935003  567 LKAVCIHSNLSQSQREAAMEKVRNGQAQILL 597
Cdd:cd18787     52 IKVAALHGDLSQEERERALKKFRSGKVRVLV 82
DEXHc_Ski2 cd17921
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases ...
 499-633 4.78e-05

DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases play an important role in RNA degradation, processing, and splicing pathways. They belong to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350679 [Multi-domain]  Cd Length: 181  Bit Score: 45.33  E-value: 4.78e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  499 SFRPGQAEAVMRI-LSGLSTLVVLPTGMGKSLCYQLPAFLYHKNSGSVSLVISPLVSLMDDQVSGLPPCLKAVCIhsNLS 577
Cdd:cd17921      1 LLNPIQREALRALyLSGDSVLVSAPTSSGKTLIAELAILRALATSGGKAVYIAPTRALVNQKEADLRERFGPLGK--NVG 78

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1799935003  578 QSQREAAMEKVRNGQAQILLLSPEAL--VASGSSSLFFRDrlppVAFACLDEAHCISQ 633
Cdd:cd17921     79 LLTGDPSVNKLLLAEADILVATPEKLdlLLRNGGERLIQD----VRLVVVDEAHLIGD 132
PTZ00449 PTZ00449
104 kDa microneme/rhoptry antigen; Provisional
 21-282 5.15e-05

104 kDa microneme/rhoptry antigen; Provisional


Pssm-ID: 185628 [Multi-domain]  Cd Length: 943  Bit Score: 47.76  E-value: 5.15e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003   21 ERRRKPSQADIEEAPEETRKLYKEYRMLKQQGKASDSSektgSQEIPNVEQvEDSGFWGSHLNRAPKIPGKSRSG-SARP 99
Cdd:PTZ00449   531 EGEHEDSKESDEPKEGGKPGETKEGEVGKKPGPAKEHK----PSKIPTLSK-KPEFPKDPKHPKDPEEPKKPKRPrSAQR 605

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  100 GISAEFYGMKLKAKLGMTGKEP--PLTPRRTPNPRR--IPKIPQSQKNPEREAEASSPEPPRNEGESEKSGD-----AGK 170
Cdd:PTZ00449   606 PTRPKSPKLPELLDIPKSPKRPesPKSPKRPPPPQRpsSPERPEGPKIIKSPKPPKSPKPPFDPKFKEKFYDdyldaAAK 685

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  171 SGDPEKS----GEFSGLGPLTLPAgmNPGFP-----PVPDKFQRLKQSVAQTLRSLDpgwlqrcQESPENQEFPAGSVRE 241
Cdd:PTZ00449   686 SKETKTTvvldESFESILKETLPE--TPGTPfttprPLPPKLPRDEEFPFEPIGDPD-------AEQPDDIEFFTPPEEE 756

                          250       260       270       280       290
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1799935003  242 KGEIHTASIG----------------NSVRKRPREGGGAAEAPAKLQRGPQGSDPGI 282
Cdd:PTZ00449   757 RTFFHETPADtplpdilaeefkeediHAETGEPDEAMKRPDSPSEHEDKPPGDHPSL 813
DEADc cd00268
DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family ...
 488-628 6.08e-05

DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350669 [Multi-domain]  Cd Length: 196  Bit Score: 45.51  E-value: 6.08e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  488 VLEALRNLGYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAF--LYHKNSGSVS----LVISP---LVSlmdd 558
Cdd:cd00268      1 LLKALKKLGFEKPTPIQAQAIPLILSGRDVIGQAQTGSGKTLAFLLPILekLLPEPKKKGRgpqaLVLAPtreLAM---- 76

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1799935003  559 QVS------GLPPCLKAVCIHSNLSQSQREAAMEKvrngQAQILLLSPEALVAsgsssLFFRDRLPP--VAFACLDEA 628
Cdd:cd00268     77 QIAevarklGKGTGLKVAAIYGGAPIKKQIEALKK----GPDIVVGTPGRLLD-----LIERGKLDLsnVKYLVLDEA 145
PRK01172 PRK01172
ATP-dependent DNA helicase;
726-842 7.29e-05

ATP-dependent DNA helicase;


Pssm-ID: 100801 [Multi-domain]  Cd Length: 674  Bit Score: 47.19  E-value: 7.29e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  726 IVFCTRREDTERLAALLRSQFPQFPPHPKPLGKNPGKGKTAG--IPgfcSATAYH-AGLSGPERRRIQRDFMGGRIRVLV 802
Cdd:PRK01172   240 LVFVSSRKNAEDYAEMLIQHFPEFNDFKVSSENNNVYDDSLNemLP---HGVAFHhAGLSNEQRRFIEEMFRNRYIKVIV 316

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*....
gi 1799935003  803 ATVAFGMGLDKAD----VRGIVHYNIPG-----NLEsYVQEVGRAGRDG 842
Cdd:PRK01172   317 ATPTLAAGVNLPArlviVRDITRYGNGGirylsNME-IKQMIGRAGRPG 364
PRK01297 PRK01297
ATP-dependent RNA helicase RhlB; Provisional
 779-865 7.80e-05

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 234938 [Multi-domain]  Cd Length: 475  Bit Score: 46.83  E-value: 7.80e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  779 AGLSG--PERRRIQ--RDFMGGRIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLFL-EP 853
Cdd:PRK01297   363 AQLSGdvPQHKRIKtlEGFREGKIRVLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGVSISFAgED 442

                           90
                   ....*....|..
gi 1799935003  854 QGRDLPELRRHI 865
Cdd:PRK01297   443 DAFQLPEIEELL 454
PRK02362 PRK02362
ATP-dependent DNA helicase;
485-555 2.24e-04

ATP-dependent DNA helicase;


Pssm-ID: 235032 [Multi-domain]  Cd Length: 737  Bit Score: 45.72  E-value: 2.24e-04
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1799935003  485 PEEVLEALRNLGYDSFRPGQAEAVMR-ILSGLSTLVVLPTGMGKSLCYQLpAFLYHKNSGSVSLVISPLVSL 555
Cdd:PRK02362     9 PEGVIEFYEAEGIEELYPPQAEAVEAgLLDGKNLLAAIPTASGKTLIAEL-AMLKAIARGGKALYIVPLRAL 79
DEADc_DDX46 cd17953
DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) ...
 485-551 2.82e-04

DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) is a component of the 17S U2 snRNP complex. It plays an important role in pre-mRNA splicing and has a role in antiviral innate immunity. DDX46 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350711 [Multi-domain]  Cd Length: 222  Bit Score: 43.91  E-value: 2.82e-04
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1799935003  485 PEEVLEALRNLGYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAFLYHKN-------SGSVSLVISP 551
Cdd:cd17953     20 SEKVLDLIKKLGYEKPTPIQAQALPAIMSGRDVIGIAKTGSGKTLAFLLPMFRHIKDqrpvkpgEGPIGLIMAP 93
DEXHc_LHR-like cd17922
DEXH-box helicase domain of LHR; Large helicase-related protein (LHR) is a DNA ...
 514-629 3.95e-04

DEXH-box helicase domain of LHR; Large helicase-related protein (LHR) is a DNA damage-inducible helicase that uses ATP hydrolysis to drive unidirectional 3'-to-5' translocation along single-stranded DNA (ssDNA) and to unwind RNA:DNA duplexes. This group also includes related bacterial and archaeal helicases from the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350680 [Multi-domain]  Cd Length: 166  Bit Score: 42.57  E-value: 3.95e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  514 GLSTLVVLPTGMGKSLCYQLPAF---LYHKNSGSVSLVISPLVSLMDDQ-------VSGLPPCLKAVCIHSNLSQSQREA 583
Cdd:cd17922      1 GRNVLIAAPTGSGKTEAAFLPALsslADEPEKGVQVLYISPLKALINDQerrleepLDEIDLEIPVAVRHGDTSQSEKAK 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|
gi 1799935003  584 AMEKVRNgqaqILLLSPEALvasgsSSLFFRDRLPP----VAFACLDEAH 629
Cdd:cd17922     81 QLKNPPG----ILITTPESL-----ELLLVNKKLRElfagLRYVVVDEIH 121
ZnF_C2HC smart00343
zinc finger;
383-398 1.31e-03

zinc finger;


Pssm-ID: 197667 [Multi-domain]  Cd Length: 17  Bit Score: 37.04  E-value: 1.31e-03
                            10
                    ....*....|....*.
gi 1799935003   383 VCFRCGRKGHWASECR 398
Cdd:smart00343    1 KCYNCGKEGHIARDCP 16
PRK13767 PRK13767
ATP-dependent helicase; Provisional
 486-629 1.99e-03

ATP-dependent helicase; Provisional


Pssm-ID: 237497 [Multi-domain]  Cd Length: 876  Bit Score: 42.57  E-value: 1.99e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  486 EEVLEALRNL-------GYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCyqlpAFL--------YHKNSG---SV-S 546
Cdd:PRK13767    12 EEILDLLRPYvrewfkeKFGTFTPPQRYAIPLIHEGKNVLISSPTGSGKTLA----AFLaiidelfrLGREGEledKVyC 87

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  547 LVISPLVSL------------------MDDQVSGLPPCLKAVcIHSNLSQSQREAAMEKvrngQAQILLLSPEALVASGS 608
Cdd:PRK13767    88 LYVSPLRALnndihrnleeplteireiAKERGEELPEIRVAI-RTGDTSSYEKQKMLKK----PPHILITTPESLAILLN 162

                          170       180
                   ....*....|....*....|.
gi 1799935003  609 SSLfFRDRLPPVAFACLDEAH 629
Cdd:PRK13767   163 SPK-FREKLRTVKWVIVDEIH 182
DEXHc_POLQ-like cd18026
DEXH-box helicase domain of DNA polymerase theta; DNA polymerase theta (POLQ) is important in ...
 485-632 2.88e-03

DEXH-box helicase domain of DNA polymerase theta; DNA polymerase theta (POLQ) is important in the repair of genomic double-strand breaks (DSBs). POLQ contains an N-terminal type II DEAD box helicase domain which contains the ATP-binding region.


Pssm-ID: 350784 [Multi-domain]  Cd Length: 202  Bit Score: 40.66  E-value: 2.88e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  485 PEEVLEALRNLGYDSFRPGQAEAVM--RILSGLSTLVVLPTGMGKSLCYQLPAFLYHKNSGSVSLVISPLVSLMDDQVSG 562
Cdd:cd18026      2 PDAVREAYAKKGIKKLYDWQKECLSlpGLLEGRNLVYSLPTSGGKTLVAEILMLKRLLERRKKALFVLPYVSIVQEKVDA 81

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1799935003  563 LPPCLKAVCIHSNLSQSQREAAMEKVRNGQAqILLLSPE---ALVasgsSSLFFRDRLPPVAFACLDEAHCIS 632
Cdd:cd18026     82 LSPLFEELGFRVEGYAGNKGRSPPKRRKSLS-VAVCTIEkanSLV----NSLIEEGRLDELGLVVVDELHMLG 149
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
 488-600 3.10e-03

DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350718 [Multi-domain]  Cd Length: 202  Bit Score: 40.25  E-value: 3.10e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  488 VLEALRNLGYDSFRPGQAEAVMRILSGLSTLVVLPTGMGKSLCYQLPAF--LY-----HKNSGSVSLVISP-------LV 553
Cdd:cd17960      1 ILDVVAELGFTSMTPVQAATIPLFLSNKDVVVEAVTGSGKTLAFLIPVLeiLLkrkanLKKGQVGALIISPtrelatqIY 80

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*..
gi 1799935003  554 SLMDDQVSGLPPCLKAVCIhsnLSQSQREAAMEKVRNGQAQILLLSP 600
Cdd:cd17960     81 EVLQSFLEHHLPKLKCQLL---IGGTNVEEDVKKFKRNGPNILVGTP 124
DEXHc_Snf cd17919
DEXH/Q-box helicase domain of DEAD-like helicase Snf family proteins; Sucrose Non-Fermenting ...
 524-636 3.59e-03

DEXH/Q-box helicase domain of DEAD-like helicase Snf family proteins; Sucrose Non-Fermenting (SNF) proteins DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350677 [Multi-domain]  Cd Length: 182  Bit Score: 39.86  E-value: 3.59e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  524 GMGK-----SLCYQLpafLYHKNSGSVSLVISPLvSLMD---DQVSGLPPCLKAVCIHSNlsQSQREAAMEKVRNGQAQI 595
Cdd:cd17919     29 GLGKtlqaiAFLAYL---LKEGKERGPVLVVCPL-SVLEnweREFEKWTPDLRVVVYHGS--QRERAQIRAKEKLDKFDV 102

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*..
gi 1799935003  596 LLLSPEALVAsgssslfFRDRLPPVAFAC--LDEAHCI----SQWSH 636
Cdd:cd17919    103 VLTTYETLRR-------DKASLRKFRWDLvvVDEAHRLknpkSQLSK 142
PRK04537 PRK04537
ATP-dependent RNA helicase RhlB; Provisional
 777-1015 4.57e-03

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235307 [Multi-domain]  Cd Length: 572  Bit Score: 41.09  E-value: 4.57e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  777 YHAG-LSG--PERRR--IQRDFMGGRIRVLVATVAFGMGLDKADVRGIVHYNIPGNLESYVQEVGRAGRDGSAARCHLF- 850
Cdd:PRK04537   282 YRVGvLSGdvPQKKResLLNRFQKGQLEILVATDVAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGDAISFa 361

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  851 LEPQGRDLPELRRHIYG----DSVDFWAIRKLLQRVFAPCKCLEIHGKLRDPPEDLEPESsgiLEFREREKRRlcRGHER 926
Cdd:PRK04537   362 CERYAMSLPDIEAYIEQkipvEPVTAELLTPLPRPPRVPVEGEEADDEAGDSVGTIFREA---REQRAAEEQR--RGGGR 436

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1799935003  927 CVPvaelvQALDLREEGENSGMRPGIRES--PPGPGIPGAVPAFPSRSDRDPPVLPGAASRQLPAAASCHRFPLPHPLLR 1004
Cdd:PRK04537   437 SGP-----GGGSRSGSVGGGGRRDGAGADgkPRPRRKPRVEGEADAAAAGAETPVVAAAAAQAPGVVAADGERAPRKRRR 511

                          250
                   ....*....|.
gi 1799935003 1005 RRPAAPGAGAE 1015
Cdd:PRK04537   512 RRNGRPVEGAE 522
zf-CCHC pfam00098
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 382-397 6.15e-03

Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eukaryotic gene regulation, such as C. elegans GLH-1. Structure is an 18-residue zinc finger.


Pssm-ID: 395050 [Multi-domain]  Cd Length: 18  Bit Score: 35.20  E-value: 6.15e-03
                           10
                   ....*....|....*.
gi 1799935003  382 DVCFRCGRKGHWASEC 397
Cdd:pfam00098    1 GKCYNCGEPGHIARDC 16
DEXHc_archSki2 cd18028
DEXH-box helicase domain of archaeal Ski2-type helicase; Archaeal Ski2-type RNA helicases play ...
 499-555 7.93e-03

DEXH-box helicase domain of archaeal Ski2-type helicase; Archaeal Ski2-type RNA helicases play an important role in RNA degradation, processing and splicing pathways. They belong to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350786 [Multi-domain]  Cd Length: 177  Bit Score: 38.85  E-value: 7.93e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1799935003  499 SFRPGQAEAVMR-ILSGLSTLVVLPTGMGKSLCYQLpAFLYHKNSGSVSLVISPLVSL 555
Cdd:cd18028      1 ELYPPQAEAVRAgLLKGENLLISIPTASGKTLIAEM-AMVNTLLEGGKALYLVPLRAL 57
HELICc smart00490
helicase superfamily c-terminal domain;
567-597 9.03e-03

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 36.42  E-value: 9.03e-03
                            10        20        30
                    ....*....|....*....|....*....|.
gi 1799935003   567 LKAVCIHSNLSQSQREAAMEKVRNGQAQILL 597
Cdd:smart00490   12 IKVARLHGGLSQEEREEILDKFNNGKIKVLV 42
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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