NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|767933035|ref|XP_011530708|]
View 

probable ATP-dependent RNA helicase DDX60-like isoform X5 [Homo sapiens]

Protein Classification

DEAD/DEAH box-containing ATP-dependent helicase( domain architecture ID 1565721)

DEAD/DEAH box-containing ATP-dependent helicase catalyzes the unwinding of DNA or RNA, similar to mitochondrial ATP-dependent RNA helicase MRH4

CATH:  1.10.820.10
EC:  3.6.4.13|3.6.4.12
Gene Ontology:  GO:0005524|GO:0016887|GO:0004386
PubMed:  21779027|20225155

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
DEAD-like_helicase_N super family cl28899
N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase ...
 743-926 2.83e-101

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


The actual alignment was detected with superfamily member cd18025:

Pssm-ID: 475120 [Multi-domain]  Cd Length: 192  Bit Score: 322.40  E-value: 2.83e-101
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  743 IPNAWQQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDVGVVVYVAPAKSLVGQVAATVENRFTKTL-PAGRT 821
Cdd:cd18025     1 NPDAWQRELLDIVDRRESALIVAPTSSGKTFISYYCMEKVLRESDDGVVVYVAPTKALVNQVVAEVYARFSKKYpPSGKS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  822 LCGAFTRDYCHN-VLNCQVLITVPECFEILLLAPHRQKWVERIRYVIFDEVHYLGREVGAKFWELLLVIIRCPFLVLSAT 900
Cdd:cd18025    81 LWGVFTRDYRHNnPMNCQVLITVPECLEILLLSPHNASWVPRIKYVIFDEIHSIGQSEDGAVWEQLLLLIPCPFLALSAT 160

                         170       180
                  ....*....|....*....|....*.
gi 767933035  901 INNPNLLTKWLQSVKQYWKQADKIME 926
Cdd:cd18025   161 IGNPQKFHEWLQSVQRARKAELKKIE 186
P-loop_NTPase super family cl38936
P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain ...
 1231-1325 6.05e-34

P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain superfamily are characterized by a conserved nucleotide phosphate-binding motif, also referred to as the Walker A motif (GxxxxGK[S/T], where x is any residue), and the Walker B motif (hhhh[D/E], where h is a hydrophobic residue). The Walker A and B motifs bind the beta-gamma phosphate moiety of the bound nucleotide (typically ATP or GTP) and the Mg2+ cation, respectively. The P-loop NTPases are involved in diverse cellular functions, and they can be divided into two major structural classes: the KG (kinase-GTPase) class which includes Ras-like GTPases and its circularly permutated YlqF-like; and the ASCE (additional strand catalytic E) class which includes ATPase Binding Cassette (ABC), DExD/H-like helicases, 4Fe-4S iron sulfur cluster binding proteins of NifH family, RecA-like F1-ATPases, and ATPases Associated with a wide variety of Activities (AAA). Also included are a diverse set of nucleotide/nucleoside kinase families.


The actual alignment was detected with superfamily member cd18795:

Pssm-ID: 476819 [Multi-domain]  Cd Length: 154  Bit Score: 128.44  E-value: 6.05e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1231 FTRHGKELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFAQDSVY-------LDALN 1303
Cdd:cd18795    51 SSRKECEKTAKDLAGIAFHHAGLTREDRELVEELFREGLIKVLVATSTLAAGVNLPARTVIIKGTQRYdgkgyreLSPLE 130

                          90       100
                  ....*....|....*....|..
gi 767933035 1304 YRQMSGRAGRRGQDLLGNVYFF 1325
Cdd:cd18795   131 YLQMIGRAGRPGFDTRGEAIIM 152
 
Name Accession Description Interval E-value
DEXHc_DDX60 cd18025
DEXH-box helicase domain of DEAD box protein 60; DEAD box protein 60 (DDX60) is an ...
 743-926 2.83e-101

DEXH-box helicase domain of DEAD box protein 60; DEAD box protein 60 (DDX60) is an IFN-inducible cytoplasmic helicase that plays a role in RIG-I-mediated type I interferon (IFN) nuclease-mediated viral RNA degradation. DDX60 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: 350783 [Multi-domain]  Cd Length: 192  Bit Score: 322.40  E-value: 2.83e-101
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  743 IPNAWQQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDVGVVVYVAPAKSLVGQVAATVENRFTKTL-PAGRT 821
Cdd:cd18025     1 NPDAWQRELLDIVDRRESALIVAPTSSGKTFISYYCMEKVLRESDDGVVVYVAPTKALVNQVVAEVYARFSKKYpPSGKS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  822 LCGAFTRDYCHN-VLNCQVLITVPECFEILLLAPHRQKWVERIRYVIFDEVHYLGREVGAKFWELLLVIIRCPFLVLSAT 900
Cdd:cd18025    81 LWGVFTRDYRHNnPMNCQVLITVPECLEILLLSPHNASWVPRIKYVIFDEIHSIGQSEDGAVWEQLLLLIPCPFLALSAT 160

                         170       180
                  ....*....|....*....|....*.
gi 767933035  901 INNPNLLTKWLQSVKQYWKQADKIME 926
Cdd:cd18025   161 IGNPQKFHEWLQSVQRARKAELKKIE 186
SF2_C_Ski2 cd18795
C-terminal helicase domain of the Ski2 family helicases; Ski2-like RNA helicases play an ...
 1231-1325 6.05e-34

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: 128.44  E-value: 6.05e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1231 FTRHGKELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFAQDSVY-------LDALN 1303
Cdd:cd18795    51 SSRKECEKTAKDLAGIAFHHAGLTREDRELVEELFREGLIKVLVATSTLAAGVNLPARTVIIKGTQRYdgkgyreLSPLE 130

                          90       100
                  ....*....|....*....|..
gi 767933035 1304 YRQMSGRAGRRGQDLLGNVYFF 1325
Cdd:cd18795   131 YLQMIGRAGRPGFDTRGEAIIM 152
Dob10 COG4581
Superfamily II RNA helicase [Replication, recombination and repair];
748-1357 1.30e-29

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


Pssm-ID: 443638 [Multi-domain]  Cd Length: 751  Bit Score: 127.75  E-value: 1.30e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  748 QQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESdvGVVVYVAPAKSLVGQvaatvenRFtktlpagRTLCGAFT 827
Cdd:COG4581    30 QEEAILALEAGRSVLVAAPTGSGKTLVAEFAIFLALARG--RRSFYTAPIKALSNQ-------KF-------FDLVERFG 93

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  828 RDychNV--------LNCQVLITVpeC-FEIL---LLAPHRQkwVERIRYVIFDEVHYLG-REVGAkFWELllVIIRCP- 893
Cdd:COG4581    94 AE---NVglltgdasVNPDAPIVV--MtTEILrnmLYREGAD--LEDVGVVVMDEFHYLAdPDRGW-VWEE--PIIHLPa 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  894 ---FLVLSATINNPNLLTKWLQSVKQywkqadkimeekcisekqadkclnflqdhsyknqsyEVRLVLCGERYNDLEKHI 970
Cdd:COG4581   164 rvqLVLLSATVGNAEEFAEWLTRVRG------------------------------------ETAVVVSEERPVPLEFHY 207

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  971 CsvkhddvyfdhfhpcaaLTTDIIEKYGFPPDLTLTPQesiqlydtmaqVWETwpraqelcpeefilfknkivikkldar 1050
Cdd:COG4581   208 L-----------------VTPRLFPLFRVNPELLRPPS-----------RHEV--------------------------- 232

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1051 kyeenlkaeltnwikngqvkkvkrvlknlspdslssskdmvkmfpllVEKLRQMDKLPAIFFLFKnddvgkRAGsvctfl 1130
Cdd:COG4581   233 -----------------------------------------------IEELDRGGLLPAIVFIFS------RRG------ 253

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1131 ektetkshphteCHSYVFAIdevlekvrkTQKRISTKKnpkkaeklERKKVYRAeyinflenlkILEISEDCTyadvkal 1210
Cdd:COG4581   254 ------------CDEAAQQL---------LSARLTTKE--------ERAEIREA----------IDEFAEDFS------- 287

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1211 hteitrnkdstlervlprvrfTRHGKELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSV 1290
Cdd:COG4581   288 ---------------------VLFGKTLSRLLRRGIAVHHAGMLPKYRRLVEELFQAGLLKVVFATDTLAVGINMPARTV 346

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1291 VFAQDS-------VYLDALNYRQMSGRAGRRGQDLLGNVY-----FFDiplPKIKRLLASSVPE-LRGQFPLSITLVLRL 1357
Cdd:COG4581   347 VFTKLSkfdgerhRPLTAREFHQIAGRAGRRGIDTEGHVVvlapeHDD---PKKFARLASARPEpLRSSFRPSYNMVLNL 423
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 748-902 7.46e-17

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: 79.59  E-value: 7.46e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035   748 QQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDVGV-VVYVAPAKSLVGQVAATVENRFTKTLPAGRTLCGAF 826
Cdd:pfam00270    4 QAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEALDKLDNGPqALVLAPTRELAEQIYEELKKLGKGLGLKVASLLGGD 83

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 767933035   827 TRDYCHNVL-NCQVLITVPECFEILLlapHRQKWVERIRYVIFDEVHYLGREVGAKFWELLLVIIR--CPFLVLSATIN 902
Cdd:pfam00270   84 SRKEQLEKLkGPDILVGTPGRLLDLL---QERKLLKNLKLLVLDEAHRLLDMGFGPDLEEILRRLPkkRQILLLSATLP 159
DEXDc smart00487
DEAD-like helicases superfamily;
742-911 2.89e-16

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 79.07  E-value: 2.89e-16
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035    742 FIPNAWQQELLD-VVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDVGVVVYVAPAKSLVGQVAATVENRFTKTlpaGR 820
Cdd:smart00487    7 EPLRPYQKEAIEaLLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGGRVLVLVPTRELAEQWAEELKKLGPSL---GL 83

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035    821 TLCGAFTRDYCHNVL------NCQVLITVPECFEILLLapHRQKWVERIRYVIFDEVHYLGrevGAKFWELLLVIIR--- 891
Cdd:smart00487   84 KVVGLYGGDSKREQLrklesgKTDILVTTPGRLLDLLE--NDKLSLSNVDLVILDEAHRLL---DGGFGDQLEKLLKllp 158

                           170       180
                    ....*....|....*....|..
gi 767933035    892 --CPFLVLSATINNPNLLTKWL 911
Cdd:smart00487  159 knVQLLLLSATPPEEIENLLEL 180
HELICc smart00490
helicase superfamily c-terminal domain;
1239-1315 4.39e-11

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 60.30  E-value: 4.39e-11
                            10        20        30        40        50        60        70
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 767933035   1239 KALAQRGIGY--HHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFaQDSVYLDALNYRQMSGRAGRRG 1315
Cdd:smart00490    5 ELLKELGIKVarLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVI-IYDLPWSPASYIQRIGRAGRAG 82
PRK02362 PRK02362
ATP-dependent DNA helicase;
1208-1317 7.03e-11

ATP-dependent DNA helicase;


Pssm-ID: 235032 [Multi-domain]  Cd Length: 737  Bit Score: 67.29  E-value: 7.03e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1208 KALHTEITRNKDSTLERVLPRVRFTRHGKELKALA---QRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIH 1284
Cdd:PRK02362  265 SALKKTLTAAERAELAELAEEIREVSDTETSKDLAdcvAKGAAFHHAGLSREHRELVEDAFRDRLIKVISSTPTLAAGLN 344

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 767933035 1285 MPCKSVV------FAQDS--VYLDALNYRQMSGRAGRRGQD 1317
Cdd:PRK02362  345 LPARRVIirdyrrYDGGAgmQPIPVLEYHQMAGRAGRPGLD 385
PRK00254 PRK00254
ski2-like helicase; Provisional
 757-919 1.97e-09

ski2-like helicase; Provisional


Pssm-ID: 234702 [Multi-domain]  Cd Length: 720  Bit Score: 62.53  E-value: 1.97e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  757 KNESAVIVAPTSSGKTYASYYCM-EKVLRESdvGVVVYVAPAKSLVGQ--------------VAATVENRFTKTLPAGRT 821
Cdd:PRK00254   38 EGKNLVLAIPTASGKTLVAEIVMvNKLLREG--GKAVYLVPLKALAEEkyrefkdweklglrVAMTTGDYDSTDEWLGKY 115

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  822 lcgaftrdychnvlncQVLITVPECFEILLlaPHRQKWVERIRYVIFDEVHYLG-REVGAKFwELLL--VIIRCPFLVLS 898
Cdd:PRK00254  116 ----------------DIIIATAEKFDSLL--RHGSSWIKDVKLVVADEIHLIGsYDRGATL-EMILthMLGRAQILGLS 176

                         170       180
                  ....*....|....*....|...
gi 767933035  899 ATINNPNLLTKWLQS--VKQYWK 919
Cdd:PRK00254  177 ATVGNAEELAEWLNAelVVSDWR 199
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 1236-1315 2.36e-06

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: 47.98  E-value: 2.36e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  1236 KELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFAQDSVYlDALNYRQMSGRAGRRG 1315
Cdd:pfam00271   31 ELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVAERGLDLPDVDLVINYDLPW-NPASYIQRIGRAGRAG 109
COG1202 COG1202
Superfamily II helicase, archaea-specific [Replication, recombination and repair];
1248-1323 1.82e-04

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


Pssm-ID: 440815 [Multi-domain]  Cd Length: 790  Bit Score: 46.42  E-value: 1.82e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1248 YHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFaqDSVYL--DALN---YRQMSGRAGRRGQDLLGNV 1322
Cdd:COG1202   453 PYHAGLDYGERKKVERRFADQELAAVVTTAALAAGVDFPASQVIF--DSLAMgiEWLSvqeFHQMLGRAGRPDYHDRGKV 530


                  .
gi 767933035 1323 Y 1323
Cdd:COG1202   531 Y 531
 
Name Accession Description Interval E-value
DEXHc_DDX60 cd18025
DEXH-box helicase domain of DEAD box protein 60; DEAD box protein 60 (DDX60) is an ...
 743-926 2.83e-101

DEXH-box helicase domain of DEAD box protein 60; DEAD box protein 60 (DDX60) is an IFN-inducible cytoplasmic helicase that plays a role in RIG-I-mediated type I interferon (IFN) nuclease-mediated viral RNA degradation. DDX60 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: 350783 [Multi-domain]  Cd Length: 192  Bit Score: 322.40  E-value: 2.83e-101
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  743 IPNAWQQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDVGVVVYVAPAKSLVGQVAATVENRFTKTL-PAGRT 821
Cdd:cd18025     1 NPDAWQRELLDIVDRRESALIVAPTSSGKTFISYYCMEKVLRESDDGVVVYVAPTKALVNQVVAEVYARFSKKYpPSGKS 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  822 LCGAFTRDYCHN-VLNCQVLITVPECFEILLLAPHRQKWVERIRYVIFDEVHYLGREVGAKFWELLLVIIRCPFLVLSAT 900
Cdd:cd18025    81 LWGVFTRDYRHNnPMNCQVLITVPECLEILLLSPHNASWVPRIKYVIFDEIHSIGQSEDGAVWEQLLLLIPCPFLALSAT 160

                         170       180
                  ....*....|....*....|....*.
gi 767933035  901 INNPNLLTKWLQSVKQYWKQADKIME 926
Cdd:cd18025   161 IGNPQKFHEWLQSVQRARKAELKKIE 186
DEXHc_Ski2 cd17921
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases ...
 745-914 9.90e-41

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: 148.95  E-value: 9.90e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  745 NAWQQELLD-VVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDvGVVVYVAPAKSLVGQVAAtvenRFTKTLPAGRTLC 823
Cdd:cd17921     3 NPIQREALRaLYLSGDSVLVSAPTSSGKTLIAELAILRALATSG-GKAVYIAPTRALVNQKEA----DLRERFGPLGKNV 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  824 GAFTRDYCHN---VLNCQVLITVPECFEILLLAPHrQKWVERIRYVIFDEVHYLGREVGAKFWELLLVIIR-----CPFL 895
Cdd:cd17921    78 GLLTGDPSVNkllLAEADILVATPEKLDLLLRNGG-ERLIQDVRLVVVDEAHLIGDGERGVVLELLLSRLLrinknARFV 156

                         170
                  ....*....|....*....
gi 767933035  896 VLSATINNPNLLTKWLQSV 914
Cdd:cd17921   157 GLSATLPNAEDLAEWLGVE 175
SF2_C_Ski2 cd18795
C-terminal helicase domain of the Ski2 family helicases; Ski2-like RNA helicases play an ...
 1231-1325 6.05e-34

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: 128.44  E-value: 6.05e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1231 FTRHGKELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFAQDSVY-------LDALN 1303
Cdd:cd18795    51 SSRKECEKTAKDLAGIAFHHAGLTREDRELVEELFREGLIKVLVATSTLAAGVNLPARTVIIKGTQRYdgkgyreLSPLE 130

                          90       100
                  ....*....|....*....|..
gi 767933035 1304 YRQMSGRAGRRGQDLLGNVYFF 1325
Cdd:cd18795   131 YLQMIGRAGRPGFDTRGEAIIM 152
Dob10 COG4581
Superfamily II RNA helicase [Replication, recombination and repair];
748-1357 1.30e-29

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


Pssm-ID: 443638 [Multi-domain]  Cd Length: 751  Bit Score: 127.75  E-value: 1.30e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  748 QQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESdvGVVVYVAPAKSLVGQvaatvenRFtktlpagRTLCGAFT 827
Cdd:COG4581    30 QEEAILALEAGRSVLVAAPTGSGKTLVAEFAIFLALARG--RRSFYTAPIKALSNQ-------KF-------FDLVERFG 93

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  828 RDychNV--------LNCQVLITVpeC-FEIL---LLAPHRQkwVERIRYVIFDEVHYLG-REVGAkFWELllVIIRCP- 893
Cdd:COG4581    94 AE---NVglltgdasVNPDAPIVV--MtTEILrnmLYREGAD--LEDVGVVVMDEFHYLAdPDRGW-VWEE--PIIHLPa 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  894 ---FLVLSATINNPNLLTKWLQSVKQywkqadkimeekcisekqadkclnflqdhsyknqsyEVRLVLCGERYNDLEKHI 970
Cdd:COG4581   164 rvqLVLLSATVGNAEEFAEWLTRVRG------------------------------------ETAVVVSEERPVPLEFHY 207

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  971 CsvkhddvyfdhfhpcaaLTTDIIEKYGFPPDLTLTPQesiqlydtmaqVWETwpraqelcpeefilfknkivikkldar 1050
Cdd:COG4581   208 L-----------------VTPRLFPLFRVNPELLRPPS-----------RHEV--------------------------- 232

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1051 kyeenlkaeltnwikngqvkkvkrvlknlspdslssskdmvkmfpllVEKLRQMDKLPAIFFLFKnddvgkRAGsvctfl 1130
Cdd:COG4581   233 -----------------------------------------------IEELDRGGLLPAIVFIFS------RRG------ 253

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1131 ektetkshphteCHSYVFAIdevlekvrkTQKRISTKKnpkkaeklERKKVYRAeyinflenlkILEISEDCTyadvkal 1210
Cdd:COG4581   254 ------------CDEAAQQL---------LSARLTTKE--------ERAEIREA----------IDEFAEDFS------- 287

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1211 hteitrnkdstlervlprvrfTRHGKELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSV 1290
Cdd:COG4581   288 ---------------------VLFGKTLSRLLRRGIAVHHAGMLPKYRRLVEELFQAGLLKVVFATDTLAVGINMPARTV 346

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1291 VFAQDS-------VYLDALNYRQMSGRAGRRGQDLLGNVY-----FFDiplPKIKRLLASSVPE-LRGQFPLSITLVLRL 1357
Cdd:COG4581   347 VFTKLSkfdgerhRPLTAREFHQIAGRAGRRGIDTEGHVVvlapeHDD---PKKFARLASARPEpLRSSFRPSYNMVLNL 423
BRR2 COG1204
Replicative superfamily II helicase [Replication, recombination and repair];
748-1323 9.84e-25

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


Pssm-ID: 440817 [Multi-domain]  Cd Length: 529  Bit Score: 110.76  E-value: 9.84e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  748 QQELLD-VVDKNESAVIVAPTSSGKTYASYYCMEKVLRESdvGVVVYVAPAKSLVGQVaatvENRFTKTLPAGRTLCGAF 826
Cdd:COG1204    27 QAEALEaGLLEGKNLVVSAPTASGKTLIAELAILKALLNG--GKALYIVPLRALASEK----YREFKRDFEELGIKVGVS 100

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  827 TRDYCHN---VLNCQVLITVPECFEILLLapHRQKWVERIRYVIFDEVHYLG-REVGAKFwELLLVIIR--CP---FLVL 897
Cdd:COG1204   101 TGDYDSDdewLGRYDILVATPEKLDSLLR--NGPSWLRDVDLVVVDEAHLIDdESRGPTL-EVLLARLRrlNPeaqIVAL 177

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  898 SATINNPNLLTKWLqsvkqywkqadkimeekcisekqadkclnflqdhsyknqsyEVRLVLCGERYNDLEKHIcsVKHDD 977
Cdd:COG1204   178 SATIGNAEEIAEWL-----------------------------------------DAELVKSDWRPVPLNEGV--LYDGV 214

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  978 VYFDhfhpcaalttdiiekygfppDLTLTPQESIQlydtmaqvwetwpraqelcpeefilfknKIVIKKLDarkyeenlk 1057
Cdd:COG1204   215 LRFD--------------------DGSRRSKDPTL----------------------------ALALDLLE--------- 237

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1058 aeltnwiKNGQVkkvkrvlknlspdslssskdmvkmfpllveklrqmdklpAIFflfknddvgkragsvctflektetks 1137
Cdd:COG1204   238 -------EGGQV---------------------------------------LVF-------------------------- 245

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1138 hphtechsyvfaidevlekvrktqkrISTKKNpkkAEKLerkkvyrAEYI-NFLENLKILEISEDctyadVKALHTEITR 1216
Cdd:COG1204   246 --------------------------VSSRRD---AESL-------AKKLaDELKRRLTPEEREE-----LEELAEELLE 284

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1217 NKDSTLErvlprvrftrhGKELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFA--- 1293
Cdd:COG1204   285 VSEETHT-----------NEKLADCLEKGVAFHHAGLPSELRRLVEDAFREGLIKVLVATPTLAAGVNLPARRVIIRdtk 353

                         570       580       590
                  ....*....|....*....|....*....|.
gi 767933035 1294 -QDSVYLDALNYRQMSGRAGRRGQDLLGNVY 1323
Cdd:COG1204   354 rGGMVPIPVLEFKQMAGRAGRPGYDPYGEAI 384
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 748-902 7.46e-17

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: 79.59  E-value: 7.46e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035   748 QQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDVGV-VVYVAPAKSLVGQVAATVENRFTKTLPAGRTLCGAF 826
Cdd:pfam00270    4 QAEAIPAILEGRDVLVQAPTGSGKTLAFLLPALEALDKLDNGPqALVLAPTRELAEQIYEELKKLGKGLGLKVASLLGGD 83

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 767933035   827 TRDYCHNVL-NCQVLITVPECFEILLlapHRQKWVERIRYVIFDEVHYLGREVGAKFWELLLVIIR--CPFLVLSATIN 902
Cdd:pfam00270   84 SRKEQLEKLkGPDILVGTPGRLLDLL---QERKLLKNLKLLVLDEAHRLLDMGFGPDLEEILRRLPkkRQILLLSATLP 159
DEXDc smart00487
DEAD-like helicases superfamily;
742-911 2.89e-16

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 79.07  E-value: 2.89e-16
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035    742 FIPNAWQQELLD-VVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDVGVVVYVAPAKSLVGQVAATVENRFTKTlpaGR 820
Cdd:smart00487    7 EPLRPYQKEAIEaLLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGGRVLVLVPTRELAEQWAEELKKLGPSL---GL 83

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035    821 TLCGAFTRDYCHNVL------NCQVLITVPECFEILLLapHRQKWVERIRYVIFDEVHYLGrevGAKFWELLLVIIR--- 891
Cdd:smart00487   84 KVVGLYGGDSKREQLrklesgKTDILVTTPGRLLDLLE--NDKLSLSNVDLVILDEAHRLL---DGGFGDQLEKLLKllp 158

                           170       180
                    ....*....|....*....|..
gi 767933035    892 --CPFLVLSATINNPNLLTKWL 911
Cdd:smart00487  159 knVQLLLLSATPPEEIENLLEL 180
DEXHc_LHR-like cd17922
DEXH-box helicase domain of LHR; Large helicase-related protein (LHR) is a DNA ...
 758-911 1.02e-15

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: 76.47  E-value: 1.02e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  758 NESAVIVAPTSSGKTYASYYC-MEKVLRESDVGV-VVYVAPAKSLV------------------------GQVAATVENR 811
Cdd:cd17922     1 GRNVLIAAPTGSGKTEAAFLPaLSSLADEPEKGVqVLYISPLKALIndqerrleepldeidleipvavrhGDTSQSEKAK 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  812 FTKTLPagrtlcgaftrdychnvlncQVLITVPECFEILLLAPHRQKWVERIRYVIFDEVH-YLGREVGAKFwELLLV-- 888
Cdd:cd17922    81 QLKNPP--------------------GILITTPESLELLLVNKKLRELFAGLRYVVVDEIHaLLGSKRGVQL-ELLLErl 139

                         170       180
                  ....*....|....*....|....*..
gi 767933035  889 --IIRCPFLV--LSATINNPNLLTKWL 911
Cdd:cd17922   140 rkLTGRPLRRigLSATLGNLEEAAAFL 166
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
725-900 7.31e-15

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


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 79.68  E-value: 7.31e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  725 HYLIRDERKDRDPRVQ-DFIPNAWQQELLD-----VVDKNESAVIVAPTSSGKTYASYYCMEKVLResdVGVVVYVAPAK 798
Cdd:COG1061    61 ELAEAEALEAGDEASGtSFELRPYQQEALEallaaLERGGGRGLVVAPTGTGKTVLALALAAELLR---GKRVLVLVPRR 137

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  799 SLVGQVAATVENRFTKTLPAGrtlcGAFTRDYCHNVLNCQVLITvpecfeilllAPHRQKWVERIRYVIFDEVHYLgrev 878
Cdd:COG1061   138 ELLEQWAEELRRFLGDPLAGG----GKKDSDAPITVATYQSLAR----------RAHLDELGDRFGLVIIDEAHHA---- 199

                         170       180
                  ....*....|....*....|...
gi 767933035  879 GAKFWELLLVIIRCPFLV-LSAT 900
Cdd:COG1061   200 GAPSYRRILEAFPAAYRLgLTAT 222
DEXHc_HFM1 cd18023
DEXH-box helicase domain of ATP-dependent DNA helicase HFM1; HFM1 is a type II DEAD box ...
 745-912 7.63e-15

DEXH-box helicase domain of ATP-dependent DNA helicase HFM1; HFM1 is a type II DEAD box helicase, required for crossover formation and complete synapsis of homologous chromosomes during meiosis. HFM1 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: 350781 [Multi-domain]  Cd Length: 206  Bit Score: 75.09  E-value: 7.63e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  745 NAWQQELL-DVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDVG-----VVVYVAPAKSLVGQVAATVENRFTktlPA 818
Cdd:cd18023     3 NRIQSEVFpDLLYSDKNFVVSAPTGSGKTVLFELAILRLLKERNPLpwgnrKVVYIAPIKALCSEKYDDWKEKFG---PL 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  819 GRTlCGAFTRDY----CHNVLNCQVLITVPECFE-ILLLAPHRQKWVERIRYVIFDEVHYLGREVGA------------- 880
Cdd:cd18023    80 GLS-CAELTGDTemddTFEIQDADIILTTPEKWDsMTRRWRDNGNLVQLVALVLIDEVHIIKENRGAtlevvvsrmktls 158

                         170       180       190
                  ....*....|....*....|....*....|...
gi 767933035  881 KFWELL-LVIIRCPFLVLSATINNPNLLTKWLQ 912
Cdd:cd18023   159 SSSELRgSTVRPMRFVAVSATIPNIEDLAEWLG 191
DEXHc_ASCC3_2 cd18022
C-terminal DEXH-box helicase domain of Activating signal cointegrator 1 complex subunit 3; ...
 758-911 1.39e-14

C-terminal DEXH-box helicase domain of Activating signal cointegrator 1 complex subunit 3; Activating signal cointegrator 1 complex subunit 3 (ASCC3) is a type II DEAD box helicase that plays a role in the repair of N-alkylated nucleotides. ASCC3 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: 350780 [Multi-domain]  Cd Length: 189  Bit Score: 73.95  E-value: 1.39e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  758 NESAVIVAPTSSGKTYASYYCMEKVLRESDVGVVVYVAPAKSLVGQVAATVENRFTKTLpaGRT---LCGAFTRDyCHNV 834
Cdd:cd18022    17 DNNVLLGAPTGSGKTIAAELAMFRAFNKYPGSKVVYIAPLKALVRERVDDWKKRFEEKL--GKKvveLTGDVTPD-MKAL 93

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  835 LNCQVLITVPECFEILLLAPHRQKWVERIRYVIFDEVHYLGREVGAkfweLLLVII-RCPFLV-----------LSATIN 902
Cdd:cd18022    94 ADADIIITTPEKWDGISRSWQTREYVQQVSLIIIDEIHLLGSDRGP----VLEVIVsRMNYISsqtekpvrlvgLSTALA 169


                  ....*....
gi 767933035  903 NPNLLTKWL 911
Cdd:cd18022   170 NAGDLANWL 178
DEXHc_Mtr4-like cd18024
DEXH-box helicase domain of ATP-dependent RNA helicase Mtr4; Mtr4 (also known as DOB1 or ...
 742-916 6.91e-13

DEXH-box helicase domain of ATP-dependent RNA helicase Mtr4; Mtr4 (also known as DOB1 or SKIV2L2) is a type II DEAD box helicase that plays a role in the processing of structured RNAs, including the maturation of 5.8S ribosomal RNA (rRNA)and is part of the TRAMP complex that is involved in exosome-mediated degradation of aberrant RNAs. Mtr4 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: 350782 [Multi-domain]  Cd Length: 205  Bit Score: 69.39  E-value: 6.91e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  742 FIPNAWQQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDvgVVVYVAPAKSLVGQVAATVENRFTKTlpagrt 821
Cdd:cd18024    31 FTLDPFQKTAIACIERNESVLVSAHTSAGKTVVAEYAIAQSLRDKQ--RVIYTSPIKALSNQKYRELQEEFGDV------ 102

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  822 lcGAFTRDYCHN-VLNCQVLITvpecfEILLLAPHRQKWVER-IRYVIFDEVHYL-GREVGAkFWE--LLLVIIRCPFLV 896
Cdd:cd18024   103 --GLMTGDVTINpNASCLVMTT-----EILRSMLYRGSEIMReVAWVIFDEIHYMrDKERGV-VWEetIILLPDKVRYVF 174

                         170       180
                  ....*....|....*....|
gi 767933035  897 LSATINNPNLLTKWLQSVKQ 916
Cdd:cd18024   175 LSATIPNARQFAEWICKIHK 194
ResIII pfam04851
Type III restriction enzyme, res subunit;
741-902 4.98e-12

Type III restriction enzyme, res subunit;


Pssm-ID: 398492 [Multi-domain]  Cd Length: 162  Bit Score: 65.77  E-value: 4.98e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035   741 DFIPNAWQQELLD-----VVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDVGVVVYVAPAKSLVGQvaatVENRFTKT 815
Cdd:pfam04851    1 KLELRPYQIEAIEnllesIKNGQKRGLIVMATGSGKTLTAAKLIARLFKKGPIKKVLFLVPRKDLLEQ----ALEEFKKF 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035   816 LPAGRTLCGAFT-RDYCHNVLNCQVLITVPECFEILLLAPHRQKWVERIRYVIFDEVHYLgrevGAKFWELLLVIIRCPF 894
Cdd:pfam04851   77 LPNYVEIGEIISgDKKDESVDDNKIVVTTIQSLYKALELASLELLPDFFDVIIIDEAHRS----GASSYRNILEYFKPAF 152


                   ....*....
gi 767933035   895 LV-LSATIN 902
Cdd:pfam04851  153 LLgLTATPE 161
DEXHc_archSki2 cd18028
DEXH-box helicase domain of archaeal Ski2-type helicase; Archaeal Ski2-type RNA helicases play ...
 748-911 1.09e-11

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: 65.05  E-value: 1.09e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  748 QQELLD-VVDKNESAVIVAPTSSGKTYASYYCMEKVLRESdvGVVVYVAPAKSLVGQVAatveNRFTKTLPAGRTlCGAF 826
Cdd:cd18028     6 QAEAVRaGLLKGENLLISIPTASGKTLIAEMAMVNTLLEG--GKALYLVPLRALASEKY----EEFKKLEEIGLK-VGIS 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  827 TRDY---CHNVLNCQVLITVPECFEILLlaPHRQKWVERIRYVIFDEVHYLGREVGAKFWELLLVIIR-----CPFLVLS 898
Cdd:cd18028    79 TGDYdedDEWLGDYDIIVATYEKFDSLL--RHSPSWLRDVGVVVVDEIHLISDEERGPTLESIVARLRrlnpnTQIIGLS 156

                         170
                  ....*....|...
gi 767933035  899 ATINNPNLLTKWL 911
Cdd:cd18028   157 ATIGNPDELAEWL 169
HELICc smart00490
helicase superfamily c-terminal domain;
1239-1315 4.39e-11

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 60.30  E-value: 4.39e-11
                            10        20        30        40        50        60        70
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 767933035   1239 KALAQRGIGY--HHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFaQDSVYLDALNYRQMSGRAGRRG 1315
Cdd:smart00490    5 ELLKELGIKVarLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVI-IYDLPWSPASYIQRIGRAGRAG 82
PRK02362 PRK02362
ATP-dependent DNA helicase;
1208-1317 7.03e-11

ATP-dependent DNA helicase;


Pssm-ID: 235032 [Multi-domain]  Cd Length: 737  Bit Score: 67.29  E-value: 7.03e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1208 KALHTEITRNKDSTLERVLPRVRFTRHGKELKALA---QRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIH 1284
Cdd:PRK02362  265 SALKKTLTAAERAELAELAEEIREVSDTETSKDLAdcvAKGAAFHHAGLSREHRELVEDAFRDRLIKVISSTPTLAAGLN 344

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 767933035 1285 MPCKSVV------FAQDS--VYLDALNYRQMSGRAGRRGQD 1317
Cdd:PRK02362  345 LPARRVIirdyrrYDGGAgmQPIPVLEYHQMAGRAGRPGLD 385
DEXHc_SKIV2L cd18027
DEXH-box helicase domain of SKIV2L; Superkiller viralicidic activity 2-like (SKIV2L, also ...
 742-916 1.71e-10

DEXH-box helicase domain of SKIV2L; Superkiller viralicidic activity 2-like (SKIV2L, also called SKI2 or DHX13) plays a role in a number of cellular processes involving alteration of RNA secondary structure such as translation initiation, nuclear and mitochondrial splicing, and ribosome and spliceosome assembly. SKIV2L 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: 350785 [Multi-domain]  Cd Length: 179  Bit Score: 61.90  E-value: 1.71e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  742 FIPNAWQQELLDVVDKNESAVIVAPTSSGKTYASYYCMekVLRESDVGVVVYVAPAKSLVGQVAATVENRFTKTlpagrt 821
Cdd:cd18027     7 FELDVFQKQAILHLEAGDSVFVAAHTSAGKTVVAEYAI--ALAQKHMTRTIYTSPIKALSNQKFRDFKNTFGDV------ 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  822 lcGAFTRDY-CHNVLNCQVLITvpecfEILLLAPHRQKWVER-IRYVIFDEVHYLGREVGAKFWELLLVII--RCPFLVL 897
Cdd:cd18027    79 --GLITGDVqLNPEASCLIMTT-----EILRSMLYNGSDVIRdLEWVIFDEVHYINDAERGVVWEEVLIMLpdHVSIILL 151

                         170
                  ....*....|....*....
gi 767933035  898 SATINNPNLLTKWLQSVKQ 916
Cdd:cd18027   152 SATVPNTVEFADWIGRIKK 170
SF2-N cd00046
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ...
 758-900 7.95e-10

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: 58.95  E-value: 7.95e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  758 NESAVIVAPTSSGKTYASYYCMEKVLRESDVGVVvYVAPAKSLVGQVAATVENRFTKTLPagrtlCGAFTRDY--CHNVL 835
Cdd:cd00046     1 GENVLITAPTGSGKTLAALLAALLLLLKKGKKVL-VLVPTKALALQTAERLRELFGPGIR-----VAVLVGGSsaEEREK 74

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 767933035  836 NC----QVLITVPECFEILLLaPHRQKWVERIRYVIFDEVH-YLGREVGAkfWELLLVIIR-----CPFLVLSAT 900
Cdd:cd00046    75 NKlgdaDIIIATPDMLLNLLL-REDRLFLKDLKLIIVDEAHaLLIDSRGA--LILDLAVRKaglknAQVILLSAT 146
PRK01172 PRK01172
ATP-dependent DNA helicase;
1238-1320 1.41e-09

ATP-dependent DNA helicase;


Pssm-ID: 100801 [Multi-domain]  Cd Length: 674  Bit Score: 62.98  E-value: 1.41e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1238 LKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVV------FAQD-SVYLDALNYRQMSGR 1310
Cdd:PRK01172  280 LNEMLPHGVAFHHAGLSNEQRRFIEEMFRNRYIKVIVATPTLAAGVNLPARLVIvrditrYGNGgIRYLSNMEIKQMIGR 359

                          90
                  ....*....|
gi 767933035 1311 AGRRGQDLLG 1320
Cdd:PRK01172  360 AGRPGYDQYG 369
PRK00254 PRK00254
ski2-like helicase; Provisional
 757-919 1.97e-09

ski2-like helicase; Provisional


Pssm-ID: 234702 [Multi-domain]  Cd Length: 720  Bit Score: 62.53  E-value: 1.97e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  757 KNESAVIVAPTSSGKTYASYYCM-EKVLRESdvGVVVYVAPAKSLVGQ--------------VAATVENRFTKTLPAGRT 821
Cdd:PRK00254   38 EGKNLVLAIPTASGKTLVAEIVMvNKLLREG--GKAVYLVPLKALAEEkyrefkdweklglrVAMTTGDYDSTDEWLGKY 115

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  822 lcgaftrdychnvlncQVLITVPECFEILLlaPHRQKWVERIRYVIFDEVHYLG-REVGAKFwELLL--VIIRCPFLVLS 898
Cdd:PRK00254  116 ----------------DIIIATAEKFDSLL--RHGSSWIKDVKLVVADEIHLIGsYDRGATL-EMILthMLGRAQILGLS 176

                         170       180
                  ....*....|....*....|...
gi 767933035  899 ATINNPNLLTKWLQS--VKQYWK 919
Cdd:PRK00254  177 ATVGNAEELAEWLNAelVVSDWR 199
PRK00254 PRK00254
ski2-like helicase; Provisional
 1236-1320 4.57e-09

ski2-like helicase; Provisional


Pssm-ID: 234702 [Multi-domain]  Cd Length: 720  Bit Score: 61.37  E-value: 4.57e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1236 KELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFAQDSVYLD-------ALNYRQMS 1308
Cdd:PRK00254  288 EKLKKALRGGVAFHHAGLGRTERVLIEDAFREGLIKVITATPTLSAGINLPAFRVIIRDTKRYSNfgwedipVLEIQQMM 367

                          90
                  ....*....|..
gi 767933035 1309 GRAGRRGQDLLG 1320
Cdd:PRK00254  368 GRAGRPKYDEVG 379
DEXHc_RE cd17926
DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family ...
 747-900 5.72e-09

DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family is composed of helicase restriction enzymes and similar proteins such as TFIIH basal transcription factor complex helicase XPB subunit. These proteins are part of 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: 350684 [Multi-domain]  Cd Length: 146  Bit Score: 56.55  E-value: 5.72e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  747 WQQELLDVVDKNES---AVIVAPTSSGKTYASYYCMEKVLRESdvgvVVYVAPAKSLVGQVAAtvenRFTKTLPaGRTLc 823
Cdd:cd17926     4 YQEEALEAWLAHKNnrrGILVLPTGSGKTLTALALIAYLKELR----TLIVVPTDALLDQWKE----RFEDFLG-DSSI- 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  824 GAFTRDYCHNVLNCQVLITVPECFEILL---LAPHRQKWverirYVIFDEVHYLgrevGAKFWELLLVIIRCPFLV-LSA 899
Cdd:cd17926    74 GLIGGGKKKDFDDANVVVATYQSLSNLAeeeKDLFDQFG-----LLIVDEAHHL----PAKTFSEILKELNAKYRLgLTA 144


                  .
gi 767933035  900 T 900
Cdd:cd17926   145 T 145
DEXHc_Brr2_1 cd18019
N-terminal DEXH-box helicase domain of spliceosomal Brr2 RNA helicase; Brr2 is a type II DEAD ...
 756-903 6.34e-08

N-terminal DEXH-box helicase domain of spliceosomal Brr2 RNA helicase; Brr2 is a type II DEAD box helicase that mediates spliceosome catalytic activation. It is a stable subunit of the spliceosome, required during splicing catalysis and spliceosome disassembly. Brr2 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: 350777 [Multi-domain]  Cd Length: 214  Bit Score: 55.07  E-value: 6.34e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  756 DKNESAVIVAPTSSGKTYASYYCMEKVL---RESDVGV------VVYVAPAKSLVGQVAATVENRFTktlPAG---RTLC 823
Cdd:cd18019    31 ETDENLLLCAPTGAGKTNVALLTILREIgkhRNPDGTInldafkIVYIAPMKALVQEMVGNFSKRLA---PYGitvAELT 107

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  824 G--AFTRDYCHNVlncQVLITVPECFEILLLAPHRQKWVERIRYVIFDEVHYLGREVGAKFWELLLVIIR--------CP 893
Cdd:cd18019   108 GdqQLTKEQISET---QIIVTTPEKWDIITRKSGDRTYTQLVRLIIIDEIHLLHDDRGPVLESIVARTIRqieqtqeyVR 184

                         170
                  ....*....|
gi 767933035  894 FLVLSATINN 903
Cdd:cd18019   185 LVGLSATLPN 194
DEXHc_Brr2_2 cd18021
C-terminal D[D/E]X[H/Q]-box helicase domain of spliceosomal Brr2 RNA helicase; Brr2 is a type ...
 745-880 1.50e-07

C-terminal D[D/E]X[H/Q]-box helicase domain of spliceosomal Brr2 RNA helicase; Brr2 is a type II DEAD box helicase that mediates spliceosome catalytic activation. It is a stable subunit of the spliceosome, required during splicing catalysis and spliceosome disassembly. Brr2 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: 350779 [Multi-domain]  Cd Length: 191  Bit Score: 53.42  E-value: 1.50e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  745 NAWQQELLDVV-DKNESAVIVAPTSSGKTYASYYCMEKVLRESDVGVVVYVAPAKSLVGQVAATVENRFTKTLpaGRT-- 821
Cdd:cd18021     5 NPIQTQVFNSLyNTDDNVFVGAPTGSGKTVCAELALLRHWRQNPKGRAVYIAPMQELVDARYKDWRAKFGPLL--GKKvv 82

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  822 -LCGAFTRDYCHnVLNCQVLITVPECFEILLLAPHRQKWVERIRYVIFDEVHYLGREVGA 880
Cdd:cd18021    83 kLTGETSTDLKL-LAKSDVILATPEQWDVLSRRWKQRKNVQSVELFIADELHLIGGENGP 141
Lhr COG1201
Lhr-like helicase [Replication, recombination and repair];
744-911 1.56e-07

Lhr-like helicase [Replication, recombination and repair];


Pssm-ID: 440814 [Multi-domain]  Cd Length: 850  Bit Score: 56.26  E-value: 1.56e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  744 PNAWQQELLDVVDKNESAVIVAPTSSGKTYASYY-CMEKVLRESDVGV------VVYVAPAKSL--------------VG 802
Cdd:COG1201    25 PTPPQREAWPAIAAGESTLLIAPTGSGKTLAAFLpALDELARRPRPGElpdglrVLYISPLKALandiernlrapleeIG 104

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  803 QVAA------TVENRFTKTLPAGRTlcgAFTRDYCHnvlncqVLITVPECFEILLLAPHRQKWVERIRYVIFDEVHYLgr 876
Cdd:COG1201   105 EAAGlplpeiRVGVRTGDTPASERQ---RQRRRPPH------ILITTPESLALLLTSPDARELLRGVRTVIVDEIHAL-- 173

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 767933035  877 eVGAK---FWELLL----VIIRCPFLV--LSATINNPNLLTKWL 911
Cdd:COG1201   174 -AGSKrgvHLALSLerlrALAPRPLQRigLSATVGPLEEVARFL 216
DEXHc_Hrq1-like cd17923
DEAH-box helicase domain of Hrq1 and similar proteins; Yeast Hrq1, similar to RecQ4, plays a ...
 759-904 2.72e-07

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: 52.59  E-value: 2.72e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  759 ESAVIVAPTSSGKTYAsyY---CMEKVLRESDVgVVVYVAPAKSLvgqvAATVENRFTKTLPA--GRTLCGAFTRDYCHN 833
Cdd:cd17923    16 RSVVVTTGTASGKSLC--YqlpILEALLRDPGS-RALYLYPTKAL----AQDQLRSLRELLEQlgLGIRVATYDGDTPRE 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  834 V------LNCQVLITVPECFEILLLAPHRQ--KWVERIRYVIFDEVHY----LGREVGAKFWELL---------LVIIRC 892
Cdd:cd17923    89 ErraiirNPPRILLTNPDMLHYALLPHHDRwaRFLRNLRYVVLDEAHTyrgvFGSHVALLLRRLRrlcrrygadPQFILT 168

                         170
                  ....*....|..
gi 767933035  893 pflvlSATINNP 904
Cdd:cd17923   169 -----SATIGNP 175
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 1236-1315 2.36e-06

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: 47.98  E-value: 2.36e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  1236 KELKALAQRGIGYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFAQDSVYlDALNYRQMSGRAGRRG 1315
Cdd:pfam00271   31 ELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATDVAERGLDLPDVDLVINYDLPW-NPASYIQRIGRAGRAG 109
DEXHc_RLR cd18036
DEXH-box helicase domain of RIG-I-like receptors; RIG-I-like receptors (RLRs) sense ...
 742-877 3.51e-06

DEXH-box helicase domain of RIG-I-like receptors; RIG-I-like receptors (RLRs) sense cytoplasmic viral RNA and comprise RIG-I, RLR-2/MDA5 (melanoma differentiation-associated protein 5) and RLR-3/LGP2 (laboratory of genetics and physiology 2). RIG-I-like receptors (RLRs) are members of 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: 350794 [Multi-domain]  Cd Length: 204  Bit Score: 49.78  E-value: 3.51e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  742 FIPNAWQQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRE----SDVGVVVYVAPAKSLVGQvAATVENRFTKTLP 817
Cdd:cd18036     1 LELRNYQLELVLPALRGKNTIICAPTGSGKTRVAVYICRHHLEKrrsaGEKGRVVVLVNKVPLVEQ-QLEKFFKYFRKGY 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 767933035  818 AGRTLCGAfTRDYC---HNVLNCQVLITVPECFEILLLAPHRQKWVERIRY--VIFDEVHYLGRE 877
Cdd:cd18036    80 KVTGLSGD-SSHKVsfgQIVKASDVIICTPQILINNLLSGREEERVYLSDFslLIFDECHHTQKE 143
SF2_C_LHR cd18796
C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a ...
 1207-1316 1.78e-05

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: 46.49  E-value: 1.78e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1207 VKALHTEITRNKdSTL---------ERVLPRVRFtRHGKELKALAqrgIGYHHSSMYFKEKEFVEILFVKGLIRVVTATE 1277
Cdd:cd18796    28 YAEVIFLLERHK-STLvftntrsqaERLAQRLRE-LCPDRVPPDF---IALHHGSLSRELREEVEAALKRGDLKVVVATS 102

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 767933035 1278 TLALGIHM-PCKSVVfaQDSVYLDALNYRQMSGRAGRRGQ 1316
Cdd:cd18796   103 SLELGIDIgDVDLVI--QIGSPKSVARLLQRLGRSGHRPG 140
DEXHc_RIG-I cd17927
DEXH-box helicase domain of DEAD-like helicase RIG-I family proteins; Members of the RIG-I ...
 744-872 2.60e-05

DEXH-box helicase domain of DEAD-like helicase RIG-I family proteins; Members of the RIG-I family include FANCM, dicer, Hef, and the RIG-I-like receptors. Fanconi anemia group M (FANCM) protein is a DNA-dependent ATPase component of the Fanconi anemia (FA) core complex required for the normal activation of the FA pathway, leading to monoubiquitination of the FANCI-FANCD2 complex in response to DNA damage, cellular resistance to DNA cross-linking drugs, and prevention of chromosomal breakage. Dicer ribonucleases cleave double-stranded RNA (dsRNA) precursors to generate microRNAs (miRNAs) and small interfering RNAs (siRNAs). Hef (helicase-associated endonuclease fork-structure) is involved in stalled replication fork repair. RIG-I-like receptors (RLRs) sense cytoplasmic viral RNA and comprises RIG-I, RLR-2/MDA5 (melanoma differentiation-associated protein 5) and RLR-3/LGP2 (laboratory of genetics and physiology 2). The RIG-I family is part of 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: 350685 [Multi-domain]  Cd Length: 201  Bit Score: 47.04  E-value: 2.60e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  744 PNAWQQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVL---RESDVGVVVYVAPAKSLVGQVAATVENRFTKtlPAGR 820
Cdd:cd17927     3 PRNYQLELAQPALKGKNTIICLPTGSGKTFVAVLICEHHLkkfPAGRKGKVVFLANKVPLVEQQKEVFRKHFER--PGYK 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 767933035  821 TlcGAFTRDYCHNVLN------CQVLITVPECFEILLLApHRQKWVERIRYVIFDEVH 872
Cdd:cd17927    81 V--TGLSGDTSENVSVeqivesSDVIIVTPQILVNDLKS-GTIVSLSDFSLLVFDECH 135
DEXHc_Hef cd18035
DEXH-box helicase domain of Hef; Hef (helicase-associated endonuclease fork-structure) belongs ...
 748-872 5.91e-05

DEXH-box helicase domain of Hef; Hef (helicase-associated endonuclease fork-structure) belongs to the XPF/MUS81/FANCM family of endonucleases and is involved in stalled replication fork repair. All archaea encode a protein of the XPF/MUS81/FANCM family of endonucleases. It exists in two forms: a long form, referred as Hef which consists of an N-terminal helicase fused to a C-terminal nuclease and is specific to euryarchaea and a short form, referred as XPF which lacks the helicase domain and is specific to crenarchaea and thaumarchaea. Hef has the unique feature of having both active helicase and nuclease domains. This domain configuration is highly similar with the human FANCM, a possible ortholog of archaeal Hef proteins. Hef is a member of 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: 350793 [Multi-domain]  Cd Length: 181  Bit Score: 45.58  E-value: 5.91e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  748 QQELLDVVDKNESAVIVAPTSSGKTYASYYCMEKVLRESDvGVVVYVAPAKSLVGQVAATVENRFTKTLPAGrTLCGAFT 827
Cdd:cd18035     6 YQVLIAAVALNGNTLIVLPTGLGKTIIAILVAADRLTKKG-GKVLILAPSRPLVEQHAENLKRVLNIPDKIT-SLTGEVK 83

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 767933035  828 RDYCHNVLN-CQVLITVPECFEILLLAPHRQkwVERIRYVIFDEVH 872
Cdd:cd18035    84 PEERAERWDaSKIIVATPQVIENDLLAGRIT--LDDVSLLIFDEAH 127
Cas3 COG1203
CRISPR-Cas type I system-associated endonuclease/helicase Cas3 [Defense mechanisms]; ...
 745-900 7.71e-05

CRISPR-Cas type I system-associated endonuclease/helicase Cas3 [Defense mechanisms]; CRISPR-Cas type I system-associated endonuclease/helicase Cas3 is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 440816 [Multi-domain]  Cd Length: 535  Bit Score: 47.38  E-value: 7.71e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  745 NAWQQELLDVVDKNESA-----VIVAPTSSGKTYASYYCMEKVLRESDVGVVVYVAPAKSLVGQVAATVENRFT------ 813
Cdd:COG1203   129 NPLQNEALELALEAAEEepglfILTAPTGGGKTEAALLFALRLAAKHGGRRIIYALPFTSIINQTYDRLRDLFGedvllh 208

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  814 --KTLPAGRTLCGAFTRDYCHNVLNCQVL---ITVpeC-----FEILLLA-PHRQKWVERIRY--VIFDEVHYLgrevGA 880
Cdd:COG1203   209 hsLADLDLLEEEEEYESEARWLKLLKELWdapVVV--TtidqlFESLFSNrKGQERRLHNLANsvIILDEVQAY----PP 282

                         170       180
                  ....*....|....*....|....*.
gi 767933035  881 KFWELLLVIIR------CPFLVLSAT 900
Cdd:COG1203   283 YMLALLLRLLEwlknlgGSVILMTAT 308
DEXHc_ASCC3_1 cd18020
N-terminal DEXH-box helicase domain of Activating signal cointegrator 1 complex subunit 3; ...
 745-880 1.09e-04

N-terminal DEXH-box helicase domain of Activating signal cointegrator 1 complex subunit 3; Activating signal cointegrator 1 complex subunit 3 (ASCC3) is a type II DEAD box helicase that plays a role in the repair of N-alkylated nucleotides. ASCC3 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: 350778 [Multi-domain]  Cd Length: 199  Bit Score: 45.11  E-value: 1.09e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  745 NAWQQELLDVVDK-NESAVIVAPTSSGKTYASYYCMEKVLRES---------DVGVVVYVAPAKSLvgqvAATVENRFTK 814
Cdd:cd18020     3 NRIQSLVFPVAYKtNENMLICAPTGAGKTNIAMLTILHEIRQHvnqggvikkDDFKIVYIAPMKAL----AAEMVEKFSK 78

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 767933035  815 TL-PAG---RTLCG--AFTRDychNVLNCQVLITVPECFEILLL-APHRQKWVERIRYVIFDEVHYLGREVGA 880
Cdd:cd18020    79 RLaPLGikvKELTGdmQLTKK---EIAETQIIVTTPEKWDVVTRkSSGDVALSQLVRLLIIDEVHLLHDDRGP 148
COG1202 COG1202
Superfamily II helicase, archaea-specific [Replication, recombination and repair];
1248-1323 1.82e-04

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


Pssm-ID: 440815 [Multi-domain]  Cd Length: 790  Bit Score: 46.42  E-value: 1.82e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1248 YHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMPCKSVVFaqDSVYL--DALN---YRQMSGRAGRRGQDLLGNV 1322
Cdd:COG1202   453 PYHAGLDYGERKKVERRFADQELAAVVTTAALAAGVDFPASQVIF--DSLAMgiEWLSvqeFHQMLGRAGRPDYHDRGKV 530


                  .
gi 767933035 1323 Y 1323
Cdd:COG1202   531 Y 531
PRK13767 PRK13767
ATP-dependent helicase; Provisional
 755-874 3.54e-04

ATP-dependent helicase; Provisional


Pssm-ID: 237497 [Multi-domain]  Cd Length: 876  Bit Score: 45.26  E-value: 3.54e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035  755 VDKNESAVIVAPTSSGKTYASY---------YCMEKVLRESdvgV-VVYVAPAKSL-----------VGQVAATVEN--- 810
Cdd:PRK13767   44 IHEGKNVLISSPTGSGKTLAAFlaiidelfrLGREGELEDK---VyCLYVSPLRALnndihrnleepLTEIREIAKErge 120

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 767933035  811 ---------RFTKTLPAGRTlcgAFTRDYCHnvlncqVLITVPECFEILLLAPH-RQKwVERIRYVIFDEVHYL 874
Cdd:PRK13767  121 elpeirvaiRTGDTSSYEKQ---KMLKKPPH------ILITTPESLAILLNSPKfREK-LRTVKWVIVDEIHSL 184
SF2_C_RecQ cd18794
C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an ...
 1239-1316 8.24e-04

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: 41.04  E-value: 8.24e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767933035 1239 KALAQRGI--GYHHSSMYFKEKEFVEILFVKGLIRVVTATETLALGIHMP-CKSVVFAqdSVYLDALNYRQMSGRAGRRG 1315
Cdd:cd18794    48 ARLQSKGIsaAAYHAGLEPSDRRDVQRKWLRDKIQVIVATVAFGMGIDKPdVRFVIHY--SLPKSMESYYQESGRAGRDG 125


                  .
gi 767933035 1316 Q 1316
Cdd:cd18794   126 L 126
SF2_C_Hrq cd18797
C-terminal helicase domain of HrQ family helicases; Yeast Hrq1, similar to RecQ4, plays a role ...
 1268-1319 3.40e-03

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: 39.55  E-value: 3.40e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 767933035 1268 GLIRVVTATETLALGIhmpcksvvfaqDSVYLDAL----------NYRQMSGRAGRRGQDLL 1319
Cdd:cd18797    91 GELLGVVATNALELGI-----------DIGGLDAVvlagypgslaSLWQQAGRAGRRGKDSL 141
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH