|
Name |
Accession |
Description |
Interval |
E-value |
| PLN03025 |
PLN03025 |
replication factor C subunit; Provisional |
36-314 |
0e+00 |
|
replication factor C subunit; Provisional
Pssm-ID: 178596 [Multi-domain] Cd Length: 319 Bit Score: 507.34 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 36 LPWVEKYRPVKLNEIVGNEDTVSRLEVFAREGNVPNIIIAGPPGTGKTTSILCLARALLGPALKDAMLELNASN------ 109
Cdd:PLN03025 1 LPWVEKYRPTKLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDdrgidv 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 110 ----------------------------DSMTDGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTD 161
Cdd:PLN03025 81 vrnkikmfaqkkvtlppgrhkivildeaDSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSD 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 162 AQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNLQSTFSGFGFINSENVFKVCDEPHPLLVKEMIQHCVNANI 241
Cdd:PLN03025 161 QEILGRLMKVVEAEKVPYVPEGLEAIIFTADGDMRQALNNLQATHSGFGFVNQENVFKVCDQPHPLHVKNIVRNCLKGKF 240
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 28882049 242 DEAYKILAHLWHLGYSPEDIIGNIFRVCKTFQMAEYLKLEFIKEIGYTHMKIAEGVNSLLQMAGLLARLCQKT 314
Cdd:PLN03025 241 DDACDGLKQLYDLGYSPTDIITTLFRVVKNYDMPEFLKLEYLREIGFAHMRICDGVGSLLQLSGLLAKLCLVR 313
|
|
| rfc |
PRK00440 |
replication factor C small subunit; Reviewed |
35-310 |
1.72e-104 |
|
replication factor C small subunit; Reviewed
Pssm-ID: 234763 [Multi-domain] Cd Length: 319 Bit Score: 308.34 E-value: 1.72e-104
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 35 ELPWVEKYRPVKLNEIVGNEDTVSRLEVFAREGNVPNIIIAGPPGTGKTTSILCLARALLGPALKDAMLELNASN----- 109
Cdd:PRK00440 4 EEIWVEKYRPRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDergid 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 110 ----------------------------DSMTDGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTD 161
Cdd:PRK00440 84 virnkikefartapvggapfkiifldeaDNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLKK 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 162 AQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNLQSTFSGFGFINSENVFKVCDEPHPLLVKEMIQHCVNANI 241
Cdd:PRK00440 164 EAVAERLRYIAENEGIEITDDALEAIYYVSEGDMRKAINALQAAAATGKEVTEEAVYKITGTARPEEIREMIELALNGDF 243
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 242 DEAYKILAHLWHL-GYSPEDIIGNIFRVCKTFQMAEYLKLEFIKEIGYTHMKIAEGVNSLLQMAGLLARL 310
Cdd:PRK00440 244 TEAREKLRDLMIDyGLSGEDIIKQIHREVWSLDIPEELKVELIDAIGEADFRITEGANERIQLEALLAKL 313
|
|
| PRK12402 |
PRK12402 |
replication factor C small subunit 2; Reviewed |
38-310 |
6.69e-55 |
|
replication factor C small subunit 2; Reviewed
Pssm-ID: 237090 [Multi-domain] Cd Length: 337 Bit Score: 181.73 E-value: 6.69e-55
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 38 WVEKYRPVKLNEIVGNEDTVSRLEVFAREGNVPNIIIAGPPGTGKTTSILCLARALLGPALKDAMLELNAS--------- 108
Cdd:PRK12402 5 WTEKYRPALLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVAdffdqgkky 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 109 --ND-----------------------------------------------SMTDGAQQALRRTMEIYSKTTRFALACNA 139
Cdd:PRK12402 85 lvEDprfahflgtdkrirsskidnfkhvlkeyasyrplsadyktilldnaeALREDAQQALRRIMEQYSRTCRFIIATRQ 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 140 SDKIIEPIQSRCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNLQSTFSGFGFINSENVFK 219
Cdd:PRK12402 165 PSKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAILTLQTAALAAGEITMEAAYE 244
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 220 VC-DEPHPLLVKEMIQHCVNANIDEAYKILAHLwhL---GYSPEDIIGNIFRVCKTFQmAEYLKLEFIKEIGYTHMKIAE 295
Cdd:PRK12402 245 ALgDVGTDEVIESLLDAAEAGDFTDARKTLDDL--LideGLSGGEVLEELLRVARSRY-RGDNLARLHRLAADADARLTD 321
|
330
....*....|....*
gi 28882049 296 GVNSLLQMAGLLARL 310
Cdd:PRK12402 322 GANDRIQLEALLAEL 336
|
|
| PRK04132 |
PRK04132 |
replication factor C small subunit; Provisional |
67-310 |
8.52e-53 |
|
replication factor C small subunit; Provisional
Pssm-ID: 235223 [Multi-domain] Cd Length: 846 Bit Score: 185.43 E-value: 8.52e-53
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 67 GNVPNIIiagppgtGKTTSILCLARALLGPALKDAMLELNASN---------------------------------DSMT 113
Cdd:PRK04132 571 GNLPTVL-------HNTTAALALARELFGENWRHNFLELNASDerginvirekvkefartkpiggasfkiifldeaDALT 643
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 114 DGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQG 193
Cdd:PRK04132 644 QDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEG 723
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 194 DMRQALNNLQSTFSGFGFINSENVFKVCDEPHPLLVKEMIQHCVNANIDEAYKILAH-LWHLGYSPEDIIGNIFRVCKTF 272
Cdd:PRK04132 724 DMRRAINILQAAAALDDKITDENVFLVASRARPEDIREMMLLALKGNFLKAREKLREiLLKQGLSGEDVLVQMHREVFNL 803
|
250 260 270
....*....|....*....|....*....|....*...
gi 28882049 273 QMAEYLKLEFIKEIGYTHMKIAEGVNSLLQMAGLLARL 310
Cdd:PRK04132 804 PIDEPKKVELADKIGEYNFRLVEGANEMIQLEALLAQF 841
|
|
| Rep_fac_C |
pfam08542 |
Replication factor C C-terminal domain; This is the C-terminal domain of RFC (replication ... |
224-309 |
1.90e-31 |
|
Replication factor C C-terminal domain; This is the C-terminal domain of RFC (replication factor-C) protein of the clamp loader complex which binds to the DNA sliding clamp (proliferating cell nuclear antigen, PCNA). The five modules of RFC assemble into a right-handed spiral, which results in only three of the five RFC subunits (RFC-A, RFC-B and RFC-C) making contact with PCNA, leaving a wedge-shaped gap between RFC-E and the PCNA clamp-loader complex. The C-terminal is vital for the correct orientation of RFC-E with respect to RFC-A.
Pssm-ID: 462513 [Multi-domain] Cd Length: 87 Bit Score: 112.95 E-value: 1.90e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 224 PHPLLVKEMIQHCVNANIDEAYKIL-AHLWHLGYSPEDIIGNIFRVCKTFQMAEYLKLEFIKEIGYTHMKIAEGVNSLLQ 302
Cdd:pfam08542 1 PHPEDIEEILNSCLNGDFDEAYKKVrELLVEKGYSLQDIITQLHRVVKSLDLPEEVKLELLEKLGEIEYRLSEGASEKLQ 80
|
....*..
gi 28882049 303 MAGLLAR 309
Cdd:pfam08542 81 LSALLAA 87
|
|
| HolB |
COG0470 |
DNA polymerase III, delta prime subunit [Replication, recombination and repair]; |
53-312 |
2.92e-31 |
|
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
Pssm-ID: 440238 [Multi-domain] Cd Length: 289 Bit Score: 118.54 E-value: 2.92e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 53 NEDTVSRLEVFAREGNVP-NIIIAGPPGTGKTTSILCLARALLGPALKDA------------------MLELNASN---- 109
Cdd:COG0470 1 QEEAWEQLLAAAESGRLPhALLLHGPPGIGKTTLALALARDLLCENPEGGkacgqchsrlmaagnhpdLLELNPEEksdq 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 110 ------------------------------DSMTDGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKL 159
Cdd:COG0470 81 igidqirelgeflsltpleggrkvviideaDAMNEAAANALLKTLEEPPKNTPFILIANDPSRLLPTIRSRCQVIRFRPP 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 160 TDAQILTRLmnviEKERVpyTDDGLEAIIFTAQGDMRQALNNLQSTFSGFGFInsENVFKVCDEPHPLlvkEMIQHCVNA 239
Cdd:COG0470 161 SEEEALAWL----REEGV--DEDALEAILRLAGGDPRAAINLLQALAGRKELL--EDLAALLSRDRAL---ELLDALLKA 229
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 28882049 240 NIDEAYKILAHLwhlgyspedIIGNIFrvcktFQMAEYLKLEFIKEIGYTHMKIAEGVNSLLQMAGLLARLCQ 312
Cdd:COG0470 230 EALELLDWLLKW---------LLDNLP-----LEYAGEDLARAYEALSEADRRLGRYANDRLLLEALLAKLGR 288
|
|
| 44 |
PHA02544 |
clamp loader, small subunit; Provisional |
35-214 |
1.59e-26 |
|
clamp loader, small subunit; Provisional
Pssm-ID: 222866 [Multi-domain] Cd Length: 316 Bit Score: 106.61 E-value: 1.59e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 35 ELPWVEKYRPVKLNEIVGNEDTVSRLEVFAREGNVPNIII-AGPPGTGKTTSILCLARALlgpalkDA-MLELNASND-- 110
Cdd:PHA02544 8 EFMWEQKYRPSTIDECILPAADKETFKSIVKKGRIPNMLLhSPSPGTGKTTVAKALCNEV------GAeVLFVNGSDCri 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 111 --------------SMTDG----------------AQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLT 160
Cdd:PHA02544 82 dfvrnrltrfastvSLTGGgkviiidefdrlgladAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDFGVPT 161
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 28882049 161 DA-------QILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNLQStFSGFGFINS 214
Cdd:PHA02544 162 KEeqiemmkQMIVRCKGILEAEGVEVDMKVLAALVKKNFPDFRRTINELQR-YASTGKIDA 221
|
|
| PRK04195 |
PRK04195 |
replication factor C large subunit; Provisional |
36-217 |
2.60e-22 |
|
replication factor C large subunit; Provisional
Pssm-ID: 235250 [Multi-domain] Cd Length: 482 Bit Score: 96.91 E-value: 2.60e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 36 LPWVEKYRPVKLNEIVGNEDTVSRLEVFAR---EGNVPN-IIIAGPPGTGKTTSILCLARALLGPalkdaMLELNASnDS 111
Cdd:PRK04195 2 MPWVEKYRPKTLSDVVGNEKAKEQLREWIEswlKGKPKKaLLLYGPPGVGKTSLAHALANDYGWE-----VIELNAS-DQ 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 112 MTdgaQQALRRTMEIYSKTTRFAlacNASDKII-------------------------------------------EPIQ 148
Cdd:PRK04195 76 RT---ADVIERVAGEAATSGSLF---GARRKLIlldevdgihgnedrggarailelikkakqpiiltandpydpslRELR 149
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 28882049 149 SRCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNLQSTFSGFGFINSENV 217
Cdd:PRK04195 150 NACLMIEFKRLSTRSIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSAINDLQAIAEGYGKLTLEDV 218
|
|
| HLD_clamp_RFC |
cd18140 |
helical lid domain of replication factor C subunit; Replication factor C (RFC) is five-protein ... |
159-221 |
8.48e-22 |
|
helical lid domain of replication factor C subunit; Replication factor C (RFC) is five-protein clamp loader complex that forms a stable ATP-dependent complex with the sliding clamp, PCNA, which binds specifically to primed DNA. RFC subunits belong to the clamp loader clade of the AAA+ superfamily.
Pssm-ID: 350842 [Multi-domain] Cd Length: 63 Bit Score: 86.81 E-value: 8.48e-22
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 28882049 159 LTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNLQSTFSGFGFINSENVFKVC 221
Cdd:cd18140 1 LSKEQIVKRLREICKKEGVKIDEEALEAIAEKSEGDMRKAINDLQAAAAGGGVITEEDVYEVA 63
|
|
| PRK14953 |
PRK14953 |
DNA polymerase III subunits gamma and tau; Provisional |
34-257 |
2.67e-20 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 237867 [Multi-domain] Cd Length: 486 Bit Score: 91.04 E-value: 2.67e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 34 YElPWVEKYRPVKLNEIVGNEDTVSRLEVFAREGNVPNI-IIAGPPGTGKTTSILCLARAL--LGP-------------- 96
Cdd:PRK14953 3 YI-PFARKYRPKFFKEVIGQEIVVRILKNAVKLQRVSHAyIFAGPRGTGKTTIARILAKVLncLNPqegepcgkcencve 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 97 ----ALKDaMLELNASNDS-------------------------------MTDGAQQALRRTMEIYSKTTRFALACNASD 141
Cdd:PRK14953 82 idkgSFPD-LIEIDAASNRgiddiralrdavsytpikgkykvyiideahmLTKEAFNALLKTLEEPPPRTIFILCTTEYD 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 142 KIIEPIQSRCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNL-QSTFSGFGFINS---ENV 217
Cdd:PRK14953 161 KIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIEYEEKALDLLAQASEGGMRDAASLLdQASTYGEGKVTIkvvEEF 240
|
250 260 270 280
....*....|....*....|....*....|....*....|
gi 28882049 218 FKVCDEPHpllVKEMIQHCVNANIDEAYKILAHLWHLGYS 257
Cdd:PRK14953 241 LGIVSQES---VRKFLNLLLESDVDEAIKFLRTLEEKGYN 277
|
|
| PRK13342 |
PRK13342 |
recombination factor protein RarA; Reviewed |
40-202 |
9.71e-20 |
|
recombination factor protein RarA; Reviewed
Pssm-ID: 237355 [Multi-domain] Cd Length: 413 Bit Score: 88.99 E-value: 9.71e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 40 EKYRPVKLNEIVGNEDTVSR---LEVFAREGNVPNIIIAGPPGTGKTTsilcLARALLGpALKDAMLELNASNDSMTD-- 114
Cdd:PRK13342 4 ERMRPKTLDEVVGQEHLLGPgkpLRRMIEAGRLSSMILWGPPGTGKTT----LARIIAG-ATDAPFEALSAVTSGVKDlr 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 115 -------GAQQALRRTM----EI--YSK--------------------TTRfalacNASDKIIEPIQSRCAVLRYTKLTD 161
Cdd:PRK13342 79 evieearQRRSAGRRTIlfidEIhrFNKaqqdallphvedgtitligaTTE-----NPSFEVNPALLSRAQVFELKPLSE 153
|
170 180 190 200
....*....|....*....|....*....|....*....|....
gi 28882049 162 A---QILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNL 202
Cdd:PRK13342 154 EdieQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLL 197
|
|
| DnaX |
COG2812 |
DNA polymerase III, gamma/tau subunits [Replication, recombination and repair]; |
44-262 |
4.41e-16 |
|
DNA polymerase III, gamma/tau subunits [Replication, recombination and repair];
Pssm-ID: 442061 [Multi-domain] Cd Length: 340 Bit Score: 77.54 E-value: 4.41e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 44 PVKLNEIVGNEDTVSRLEVFAREGNVPN-IIIAGPPGTGKTTSILCLARALLGPALKD-----------AMLELN----- 106
Cdd:COG2812 6 PQTFDDVVGQEHVVRTLKNALASGRLAHaYLFTGPRGVGKTTLARILAKALNCENGPTgepcgecescrAIAAGShpdvi 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 107 -----ASN------------------------------DSMTDGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRC 151
Cdd:COG2812 86 eidaeASNigvddireliekvsyapvegrykvyiideaHMLTTEAFNALLKTLEEPPPHVVFILATTEPQKLLPTILSRC 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 152 AVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNLQSTfSGFGFINSENvfkvcdephplLVKE 231
Cdd:COG2812 166 QRFDFRRLPPEEIAEHLAKIAEREGIEIEPEALALIARAADGSMRDALSLLDQA-IAFGLLDRRE-----------LLLD 233
|
250 260 270
....*....|....*....|....*....|.
gi 28882049 232 MIQHCVNANIDEAYKILAHLWHLGYSPEDII 262
Cdd:COG2812 234 LLEALLAGDVAALLALAEELAKRGRDLKRFL 264
|
|
| PRK07133 |
PRK07133 |
DNA polymerase III subunits gamma and tau; Validated |
36-286 |
2.93e-15 |
|
DNA polymerase III subunits gamma and tau; Validated
Pssm-ID: 235943 [Multi-domain] Cd Length: 725 Bit Score: 76.39 E-value: 2.93e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 36 LPWVEKYRPVKLNEIVGNEDTVSRLEvfaregnvpNII----------IAGPPGTGKTTSILCLARAL--------LGPA 97
Cdd:PRK07133 6 KALYRKYRPKTFDDIVGQDHIVQTLK---------NIIksnkishaylFSGPRGTGKTSVAKIFANALncshktdlLEPC 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 98 LK--------------DAmlelnASNDS------------------------------MTDGAQQALRRTMEIYSKTTRF 133
Cdd:PRK07133 77 QEcienvnnsldiiemDA-----ASNNGvdeirelienvknlptqskykiyiidevhmLSKSAFNALLKTLEEPPKHVIF 151
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 134 ALACNASDKIIEPIQSRCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNLQ--STFSG--- 208
Cdd:PRK07133 152 ILATTEVHKIPLTILSRVQRFNFRRISEDEIVSRLEFILEKENISYEKNALKLIAKLSSGSLRDALSIAEqvSIFGNnki 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 209 --------FGFINSENVFKvcdephplLVKEMiqhcVNANIDEAYKILAHLWHLGYSPE-------DIIGN--IFRVCKT 271
Cdd:PRK07133 232 tlknveelFGLVSNENLIN--------LLNLL----YSKDIKEVLNILNQIKEQGIDPElllisliNLVKEfiIFNKTKD 299
|
330
....*....|....*
gi 28882049 272 FQMAEYLKLEFIKEI 286
Cdd:PRK07133 300 NSLLEYYSEEDLEKL 314
|
|
| RarA |
COG2256 |
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ... |
43-202 |
7.93e-14 |
|
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, recombination and repair];
Pssm-ID: 441857 [Multi-domain] Cd Length: 439 Bit Score: 71.63 E-value: 7.93e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 43 RPVKLNEIVGNEDTVSR---LEVFAREGNVPNIIIAGPPGTGKTTsilcLARALLGpALKDAMLELNASNDSMTDgaqqa 119
Cdd:COG2256 20 RPRTLDEVVGQEHLLGPgkpLRRAIEAGRLSSMILWGPPGTGKTT----LARLIAN-ATDAEFVALSAVTSGVKD----- 89
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 120 LRRTME------IYSKTT--------RF------AL------------AC---NASDKIIEPIQSRCAVLRYTKLTDAQI 164
Cdd:COG2256 90 IREVIEearerrAYGRRTilfvdeihRFnkaqqdALlphvedgtitliGAtteNPSFEVNSALLSRCRVFVLKPLSEEDL 169
|
170 180 190 200
....*....|....*....|....*....|....*....|....*
gi 28882049 165 LTRLMNVIEKE-------RVPYTDDGLEAIIFTAQGDMRQALNNL 202
Cdd:COG2256 170 EQLLERALADDerglggyKLELDDEALEALARLADGDARRALNAL 214
|
|
| PRK14962 |
PRK14962 |
DNA polymerase III subunits gamma and tau; Provisional |
41-294 |
3.70e-13 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 237869 [Multi-domain] Cd Length: 472 Bit Score: 69.79 E-value: 3.70e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 41 KYRPVKLNEIVGnEDTVSRLEVFAREGNVPN--IIIAGPPGTGKTTSILCLARALLGPALKDA----------------- 101
Cdd:PRK14962 7 KYRPKTFSEVVG-QDHVKKLIINALKKNSIShaYIFAGPRGTGKTTVARILAKSLNCENRKGVepcnecracrsidegtf 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 102 --MLELNASNDS-------------------------------MTDGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQ 148
Cdd:PRK14962 86 mdVIELDAASNRgideirkirdavgyrpmegkykvyiidevhmLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTII 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 149 SRCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNLQ--STFSGfGFINSENVFK----VCD 222
Cdd:PRK14962 166 SRCQVIEFRNISDELIIKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLEqvWKFSE-GKITLETVHEalglIPI 244
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 223 EphplLVKEMIQHCVNANIDEAYKILAHLWHLGYSP--------EDIIGNIFRVcKTFQMAEYLK--LEFIKEIGYTHMK 292
Cdd:PRK14962 245 E----VVRDYINAIFNGDVKRVFTVLDDVYYSGKDYevliqqaiEDLVEDLERE-RANDIIQVSRqlLNILREIKFAEEK 319
|
..
gi 28882049 293 IA 294
Cdd:PRK14962 320 RL 321
|
|
| PRK14970 |
PRK14970 |
DNA polymerase III subunits gamma and tau; Provisional |
41-208 |
9.15e-13 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 184934 [Multi-domain] Cd Length: 367 Bit Score: 67.98 E-value: 9.15e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 41 KYRPVKLNEIVGNEDTVSRLEVFAREGNVPN-IIIAGPPGTGKTTSILCLARALLGPALKDA-------MLELNA-SNDS 111
Cdd:PRK14970 10 KYRPQTFDDVVGQSHITNTLLNAIENNHLAQaLLFCGPRGVGKTTCARILARKINQPGYDDPnedfsfnIFELDAaSNNS 89
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 112 MTD------------------------------GAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTD 161
Cdd:PRK14970 90 VDDirnlidqvrippqtgkykiyiidevhmlssAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQIFDFKRITI 169
|
170 180 190 200
....*....|....*....|....*....|....*....|....*....
gi 28882049 162 AQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALN--NLQSTFSG 208
Cdd:PRK14970 170 KDIKEHLAGIAVKEGIKFEDDALHIIAQKADGALRDALSifDRVVTFCG 218
|
|
| PRK04132 |
PRK04132 |
replication factor C small subunit; Provisional |
35-82 |
2.15e-12 |
|
replication factor C small subunit; Provisional
Pssm-ID: 235223 [Multi-domain] Cd Length: 846 Bit Score: 67.94 E-value: 2.15e-12
10 20 30 40
....*....|....*....|....*....|....*....|....*...
gi 28882049 35 ELPWVEKYRPVKLNEIVGNEDTVSRLEVFAREGNVPNIIIAGPPGTGK 82
Cdd:PRK04132 6 EKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGK 53
|
|
| PRK14964 |
PRK14964 |
DNA polymerase III subunits gamma and tau; Provisional |
41-269 |
2.76e-12 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 237870 [Multi-domain] Cd Length: 491 Bit Score: 67.12 E-value: 2.76e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 41 KYRPVKLNEIVGNEDTVSRLEVFAREGNVPN-IIIAGPPGTGKTTSI----LCLaRALLGP------------ALKDA-- 101
Cdd:PRK14964 6 KYRPSSFKDLVGQDVLVRILRNAFTLNKIPQsILLVGASGVGKTTCAriisLCL-NCSNGPtsdpcgtchnciSIKNSnh 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 102 --MLELNA-SNDSMTD------------------------------GAQQALRRTMEIYSKTTRFALACNASDKIIEPIQ 148
Cdd:PRK14964 85 pdVIEIDAaSNTSVDDikvilenscylpisskfkvyiidevhmlsnSAFNALLKTLEEPAPHVKFILATTEVKKIPVTII 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 149 SRCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNL-QSTFSGFGFINSENVFKV--CDEPH 225
Cdd:PRK14964 165 SRCQRFDLQKIPTDKLVEHLVDIAKKENIEHDEESLKLIAENSSGSMRNALFLLeQAAIYSNNKISEKSVRDLlgCVDKH 244
|
250 260 270 280
....*....|....*....|....*....|....*....|....*...
gi 28882049 226 PLLvkEMIQHCVNANIDEAYKILAHLWHLgYSP----EDIIGNIFRVC 269
Cdd:PRK14964 245 ILE--DLVEAILLGDAQSALNVFRELCNT-SNPviilEGMLQIIYEIC 289
|
|
| AAA |
cd00009 |
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ... |
51-151 |
1.30e-09 |
|
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Pssm-ID: 99707 [Multi-domain] Cd Length: 151 Bit Score: 56.00 E-value: 1.30e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 51 VGNEDTVSRLEVFAREGNVPNIIIAGPPGTGKTTSILCLARALLGPalKDAMLELNASN--------------------- 109
Cdd:cd00009 1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRP--GAPFLYLNASDlleglvvaelfghflvrllfe 78
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 28882049 110 ---------------DSMTDGAQQALRRTMEIYSKTT------RFALACNASD--KIIEPIQSRC 151
Cdd:cd00009 79 laekakpgvlfideiDSLSRGAQNALLRVLETLNDLRidrenvRVIGATNRPLlgDLDRALYDRL 143
|
|
| PRK14963 |
PRK14963 |
DNA polymerase III subunits gamma and tau; Provisional |
40-198 |
8.90e-09 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 184927 [Multi-domain] Cd Length: 504 Bit Score: 56.39 E-value: 8.90e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 40 EKYRPVKLNEIVGNEDTVSRLEVFAREGNVPNI-IIAGPPGTGKTTSILCLARAL--LGPALKDA--------------- 101
Cdd:PRK14963 6 QRARPITFDEVVGQEHVKEVLLAALRQGRLGHAyLFSGPRGVGKTTTARLIAMAVncSGEDPKPCgecesclavrrgahp 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 102 -MLELNA-SNDS------------------------------MTDGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQS 149
Cdd:PRK14963 86 dVLEIDAaSNNSvedvrdlrekvllaplrggrkvyildeahmMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILS 165
|
170 180 190 200
....*....|....*....|....*....|....*....|....*....
gi 28882049 150 RCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQA 198
Cdd:PRK14963 166 RTQHFRFRRLTEEEIAGKLRRLLEAEGREAEPEALQLVARLADGAMRDA 214
|
|
| PRK14950 |
PRK14950 |
DNA polymerase III subunits gamma and tau; Provisional |
41-210 |
5.29e-08 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 237864 [Multi-domain] Cd Length: 585 Bit Score: 54.05 E-value: 5.29e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 41 KYRPVKLNEIVGNEDTVSRLEVFAREGNVPNI-IIAGPPGTGKTTSILCLARAL------------------LGPALKDA 101
Cdd:PRK14950 9 KWRSQTFAELVGQEHVVQTLRNAIAEGRVAHAyLFTGPRGVGKTSTARILAKAVncttndpkgrpcgtcemcRAIAEGSA 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 102 M--LELNA-SNDSMTD------------------------------GAQQALRRTMEIYSKTTRFALACNASDKIIEPIQ 148
Cdd:PRK14950 89 VdvIEMDAaSHTSVDDareiiervqfrpalarykvyiidevhmlstAAFNALLKTLEEPPPHAIFILATTEVHKVPATIL 168
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 28882049 149 SRCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNLQSTFSGFG 210
Cdd:PRK14950 169 SRCQRFDFHRHSVADMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAENLLQQLATTYG 230
|
|
| PRK14961 |
PRK14961 |
DNA polymerase III subunits gamma and tau; Provisional |
119-298 |
1.82e-07 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 184925 [Multi-domain] Cd Length: 363 Bit Score: 52.12 E-value: 1.82e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 119 ALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQA 198
Cdd:PRK14961 138 ALLKTLEEPPQHIKFILATTDVEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKESIDTDEYALKLIAYHAHGSMRDA 217
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 199 LNNLQSTFS-GFGFINSENVFK---VCDEPHPLLVKEMIqhcVNANIDEAYKILAHLWHLGYSPEDIIGNIFRVCKTFQM 274
Cdd:PRK14961 218 LNLLEHAINlGKGNINIKNVTDmlgLLNEKQSFLLTDAL---LKKDSKKTMLLLNKISSIGIEWENILIEMLRFLHHISM 294
|
170 180
....*....|....*....|....*...
gi 28882049 275 AEYLKL----EFIKEIGYTHMKIAEGVN 298
Cdd:PRK14961 295 SQSFPKiwntIFIKNYKNQIQKIAQNNK 322
|
|
| PRK14965 |
PRK14965 |
DNA polymerase III subunits gamma and tau; Provisional |
41-202 |
3.09e-07 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 237871 [Multi-domain] Cd Length: 576 Bit Score: 51.67 E-value: 3.09e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 41 KYRPVKLNEIVGNEDTVSRLEVFAREGNVPN-IIIAGPPGTGKTTSILCLARAL---LGPALKDA--------------- 101
Cdd:PRK14965 9 KYRPQTFSDLTGQEHVSRTLQNAIDTGRVAHaFLFTGARGVGKTSTARILAKALnceQGLTAEPCnvcppcveitegrsv 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 102 -MLELN-ASNDSMTD------------------------------GAQQALRRTMEIYSKTTRFALACNASDKIIEPIQS 149
Cdd:PRK14965 89 dVFEIDgASNTGVDDirelrenvkylpsrsrykifiidevhmlstNAFNALLKTLEEPPPHVKFIFATTEPHKVPITILS 168
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|...
gi 28882049 150 RCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNL 202
Cdd:PRK14965 169 RCQRFDFRRIPLQKIVDRLRYIADQEGISISDAALALVARKGDGSMRDSLSTL 221
|
|
| PRK14957 |
PRK14957 |
DNA polymerase III subunits gamma and tau; Provisional |
119-252 |
8.76e-07 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 184921 [Multi-domain] Cd Length: 546 Bit Score: 50.08 E-value: 8.76e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 119 ALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQA 198
Cdd:PRK14957 138 ALLKTLEEPPEYVKFILATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENINSDEQSLEYIAYHAKGSLRDA 217
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 28882049 199 LNNLQSTFS-------------GFGFINSENVFKVCD---EPHPLLVKEMIQH--CVNANIDEAYKILAHLW 252
Cdd:PRK14957 218 LSLLDQAISfcggelkqaqikqMLGIIDSEEVYSIINaiiDNDPKAILPAIKNlaLTESSADAVLDRIAEIW 289
|
|
| PRK08691 |
PRK08691 |
DNA polymerase III subunits gamma and tau; Validated |
41-217 |
1.29e-06 |
|
DNA polymerase III subunits gamma and tau; Validated
Pssm-ID: 236333 [Multi-domain] Cd Length: 709 Bit Score: 49.71 E-value: 1.29e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 41 KYRPVKLNEIVGNEDTVSRLEVFAREGNVPNI-IIAGPPGTGKTTSILCLARALLGPALKDA------------------ 101
Cdd:PRK08691 9 KWRPKTFADLVGQEHVVKALQNALDEGRLHHAyLLTGTRGVGKTTIARILAKSLNCENAQHGepcgvcqsctqidagryv 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 102 -MLELNASNDSMTD-------------------------------GAQQALRRTMEIYSKTTRFALACNASDKIIEPIQS 149
Cdd:PRK08691 89 dLLEIDAASNTGIDnirevlenaqyaptagkykvyiidevhmlskSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLS 168
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 28882049 150 RCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNL-QSTFSGFGFINSENV 217
Cdd:PRK08691 169 RCLQFVLRNMTAQQVADHLAHVLDSEKIAYEPPALQLLGRAAAGSMRDALSLLdQAIALGSGKVAENDV 237
|
|
| PRK06647 |
PRK06647 |
DNA polymerase III subunits gamma and tau; Validated |
41-262 |
1.80e-06 |
|
DNA polymerase III subunits gamma and tau; Validated
Pssm-ID: 235845 [Multi-domain] Cd Length: 563 Bit Score: 49.38 E-value: 1.80e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 41 KYRPVKLNEIVGNEDTVSRLEVFAREGNVPNI-IIAGPPGTGKTTSILCLARAL---LGPAL-------------KDAML 103
Cdd:PRK06647 9 KRRPRDFNSLEGQDFVVETLKHSIESNKIANAyIFSGPRGVGKTSSARAFARCLncvNGPTPmpcgecsscksidNDNSL 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 104 EL----NASNDSMTD------------------------------GAQQALRRTMEIYSKTTRFALACNASDKIIEPIQS 149
Cdd:PRK06647 89 DVieidGASNTSVQDvrqikeeimfppassryrvyiidevhmlsnSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKS 168
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 150 RCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQA---------LNNLQSTF----SGFGFINSEN 216
Cdd:PRK06647 169 RCQHFNFRLLSLEKIYNMLKKVCLEDQIKYEDEALKWIAYKSTGSVRDAytlfdqvvsFSDSDITLeqirSKMGLTGDEF 248
|
250 260 270 280
....*....|....*....|....*....|....*....|....*.
gi 28882049 217 VFKVcdephpllvkemIQHCVNANIDEAYKILAHLWHLGYSPEDII 262
Cdd:PRK06647 249 LEKL------------ASSILNEDAKELLCVLDSVFLSGVSVEQFL 282
|
|
| HLD_clamp |
cd18133 |
helical lid domain of clamp loader-like AAA+ proteins; Clamp loader complexes are multisubunit ... |
162-204 |
2.04e-06 |
|
helical lid domain of clamp loader-like AAA+ proteins; Clamp loader complexes are multisubunit complexes that play an important role in DNA replication. They open sliding clamps for assembly and close them around DNA, specifically targeting them to sites where DNA synthesis is initiated and orienting them correctly for replication. The subunits belong to the clamp loader clade of AAA+ superfamily.
Pssm-ID: 350838 [Multi-domain] Cd Length: 65 Bit Score: 44.77 E-value: 2.04e-06
10 20 30 40
....*....|....*....|....*....|....*....|...
gi 28882049 162 AQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNLQS 204
Cdd:cd18133 4 EQLKRRLAAIAEQEKLKLDDAALQALAYISEGDLRKALNALQR 46
|
|
| PRK14969 |
PRK14969 |
DNA polymerase III subunits gamma and tau; Provisional |
41-217 |
2.79e-06 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 237873 [Multi-domain] Cd Length: 527 Bit Score: 48.59 E-value: 2.79e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 41 KYRPVKLNEIVGNEDTVSRLeVFAREGNVPN--IIIAGPPGTGKTTSILCLARAL-------LGPALKDA---------- 101
Cdd:PRK14969 9 KWRPKSFSELVGQEHVVRAL-TNALEQQRLHhaYLFTGTRGVGKTTLARILAKSLncetgvtATPCGVCSacleidsgrf 87
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 102 --MLELNA-SN---DSMT---DGAQ------------------------QALRRTMEIYSKTTRFALACNASDKIIEPIQ 148
Cdd:PRK14969 88 vdLIEVDAaSNtqvDAMRellDNAQyaptrgrfkvyiidevhmlsksafNAMLKTLEEPPEHVKFILATTDPQKIPVTVL 167
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 149 SRCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALNNL-QSTFSGFGFINSENV 217
Cdd:PRK14969 168 SRCLQFNLKQMPPPLIVSHLQHILEQENIPFDATALQLLARAAAGSMRDALSLLdQAIAYGGGTVNESEV 237
|
|
| PRK13341 |
PRK13341 |
AAA family ATPase; |
35-203 |
3.46e-06 |
|
AAA family ATPase;
Pssm-ID: 237354 [Multi-domain] Cd Length: 725 Bit Score: 48.51 E-value: 3.46e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 35 ELPWVEKYRPVKLNEIVGN-----EDTVSRLEVFAreGNVPNIIIAGPPGTGKTTsilcLARAL----------LGPAL- 98
Cdd:PRK13341 15 EAPLADRLRPRTLEEFVGQdhilgEGRLLRRAIKA--DRVGSLILYGPPGVGKTT----LARIIanhtrahfssLNAVLa 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 99 --KDAMLELNASNDSMT----------------DGAQQ-AL-----RRTMEIYSKTTRfalacNASDKIIEPIQSRCAVL 154
Cdd:PRK13341 89 gvKDLRAEVDRAKERLErhgkrtilfidevhrfNKAQQdALlpwveNGTITLIGATTE-----NPYFEVNKALVSRSRLF 163
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*...
gi 28882049 155 RYTKLTDA---QILTRLMNviEKER------VPYTDDGLEAIIFTAQGDMRQALNNLQ 203
Cdd:PRK13341 164 RLKSLSDEdlhQLLKRALQ--DKERgygdrkVDLEPEAEKHLVDVANGDARSLLNALE 219
|
|
| COG1223 |
COG1223 |
Predicted ATPase, AAA+ superfamily [General function prediction only]; |
47-108 |
9.57e-06 |
|
Predicted ATPase, AAA+ superfamily [General function prediction only];
Pssm-ID: 440836 [Multi-domain] Cd Length: 246 Bit Score: 46.03 E-value: 9.57e-06
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 28882049 47 LNEIVGNEDTVSRLEVFARE----------GNVP--NIIIAGPPGTGKTTsilcLARALLGpALKDAMLELNAS 108
Cdd:COG1223 1 LDDVVGQEEAKKKLKLIIKElrrrenlrkfGLWPprKILFYGPPGTGKTM----LAEALAG-ELKLPLLTVRLD 69
|
|
| McrB |
COG1401 |
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ... |
70-96 |
2.49e-05 |
|
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB [Defense mechanisms];
Pssm-ID: 441011 [Multi-domain] Cd Length: 477 Bit Score: 45.53 E-value: 2.49e-05
10 20
....*....|....*....|....*..
gi 28882049 70 PNIIIAGPPGTGKTTSILCLARALLGP 96
Cdd:COG1401 222 KNVILAGPPGTGKTYLARRLAEALGGE 248
|
|
| PRK14954 |
PRK14954 |
DNA polymerase III subunits gamma and tau; Provisional |
41-198 |
2.54e-05 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 184918 [Multi-domain] Cd Length: 620 Bit Score: 45.70 E-value: 2.54e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 41 KYRPVKLNEIVGNEDTVSRLEVFAREGNVPN-IIIAGPPGTGKTTSILCLARALLGPALK-------------------- 99
Cdd:PRK14954 9 KYRPSKFADITAQEHITHTIQNSLRMDRVGHgYIFSGLRGVGKTTAARVFAKAVNCQRMIddpvylqevtepcgecescr 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 100 --DAMLELN------ASNDSMTD----------GAQQ--------------------ALRRTMEIYSKTTRFALACNASD 141
Cdd:PRK14954 89 dfDAGTSLNisefdaASNNSVDDirqlrenvryGPQKgryrvyiidevhmlstaafnAFLKTLEEPPPHAIFIFATTELH 168
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*..
gi 28882049 142 KIIEPIQSRCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQA 198
Cdd:PRK14954 169 KIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQIDADALQLIARKAQGSMRDA 225
|
|
| PRK14955 |
PRK14955 |
DNA polymerase III subunits gamma and tau; Provisional |
41-198 |
2.61e-05 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 184919 [Multi-domain] Cd Length: 397 Bit Score: 45.27 E-value: 2.61e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 41 KYRPVKLNEIVGNEDTVSRLEVFAREGNVPN-IIIAGPPGTGKTTSILCLARALLGPALK-------------------- 99
Cdd:PRK14955 9 KYRPKKFADITAQEHITRTIQNSLRMGRVGHgYIFSGLRGVGKTTAARVFAKAVNCQRMIddadylqevtepcgecescr 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 100 --DAMLELN------ASNDSMTD----------GAQQ--------------------ALRRTMEIYSKTTRFALACNASD 141
Cdd:PRK14955 89 dfDAGTSLNisefdaASNNSVDDirllrenvryGPQKgryrvyiidevhmlsiaafnAFLKTLEEPPPHAIFIFATTELH 168
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*..
gi 28882049 142 KIIEPIQSRCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQA 198
Cdd:PRK14955 169 KIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEGISVDADALQLIGRKAQGSMRDA 225
|
|
| Rad17 |
pfam03215 |
Rad17 P-loop domain; |
37-100 |
4.50e-05 |
|
Rad17 P-loop domain;
Pssm-ID: 367398 [Multi-domain] Cd Length: 186 Bit Score: 43.41 E-value: 4.50e-05
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 28882049 37 PWVEKYRPVKLNEIVGNEDTVSRLEVFAREGNVPN-----IIIAGPPGTGKTTSILCLARaLLGPALKD 100
Cdd:pfam03215 8 QWYEKYKPNCLEQLAVHKRKIKDVQEWLDAMFLENakhriLLISGPSGCGKSTVIKELSK-ELGPKYRE 75
|
|
| rad24 |
TIGR00602 |
checkpoint protein rad24; All proteins in this family for which functions are known are ... |
37-100 |
4.75e-05 |
|
checkpoint protein rad24; All proteins in this family for which functions are known are involved in DNA damage tolerance (likely cell cycle checkpoints).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: 129690 [Multi-domain] Cd Length: 637 Bit Score: 44.95 E-value: 4.75e-05
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 28882049 37 PWVEKYRPVKLNEIVGNEDTVSRLEVFAREGNVPN-----IIIAGPPGTGKTTSILCLARaLLGPALKD 100
Cdd:TIGR00602 73 PWVEKYKPETQHELAVHKKKIEEVETWLKAQVLENapkriLLITGPSGCGKSTTIKILSK-ELGIQVQE 140
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
71-144 |
4.94e-05 |
|
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Pssm-ID: 214640 [Multi-domain] Cd Length: 148 Bit Score: 42.75 E-value: 4.94e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 71 NIIIAGPPGTGKTTSILCLARALLGPALKdaMLELNASNDSMTDGAQQALRRTMEIYSKTTR-------FALACNASDKI 143
Cdd:smart00382 4 VILIVGPPGSGKTTLARALARELGPPGGG--VIYIDGEDILEEVLDQLLLIIVGGKKASGSGelrlrlaLALARKLKPDV 81
|
.
gi 28882049 144 I 144
Cdd:smart00382 82 L 82
|
|
| SpoVK |
COG0464 |
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ... |
39-93 |
5.12e-05 |
|
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];
Pssm-ID: 440232 [Multi-domain] Cd Length: 397 Bit Score: 44.52 E-value: 5.12e-05
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 28882049 39 VEKYRPVKLNEIVGNEDTVSRL-----------EVFAREGNVP--NIIIAGPPGTGKTTSILCLARAL 93
Cdd:COG0464 148 LLELREAILDDLGGLEEVKEELrelvalplkrpELREEYGLPPprGLLLYGPPGTGKTLLARALAGEL 215
|
|
| ruvB |
PRK00080 |
Holliday junction branch migration DNA helicase RuvB; |
43-84 |
5.43e-05 |
|
Holliday junction branch migration DNA helicase RuvB;
Pssm-ID: 234619 [Multi-domain] Cd Length: 328 Bit Score: 44.35 E-value: 5.43e-05
10 20 30 40
....*....|....*....|....*....|....*....|....*..
gi 28882049 43 RPVKLNEIVGNEDTVSRLEVF---AREGNVP--NIIIAGPPGTGKTT 84
Cdd:PRK00080 20 RPKSLDEFIGQEKVKENLKIFieaAKKRGEAldHVLLYGPPGLGKTT 66
|
|
| RuvB_N |
pfam05496 |
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ... |
43-98 |
6.98e-05 |
|
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the RuvABC revolvasome which catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalyzed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein.
Pssm-ID: 398900 [Multi-domain] Cd Length: 159 Bit Score: 42.49 E-value: 6.98e-05
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 28882049 43 RPVKLNEIVGNEDTVSRLEVF---AREGNVP--NIIIAGPPGTGKTTSILCLARAL-------LGPAL 98
Cdd:pfam05496 2 RPRTLDEYIGQEKVKENLKIFieaAKQRGEAldHVLLYGPPGLGKTTLANIIANEMgvniritSGPAI 69
|
|
| Mg_chelatase |
pfam01078 |
Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that ... |
47-120 |
8.22e-05 |
|
Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that catalyzes the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. Due to this, it is thought that Mg-chelatase has an important role in channelling inter- mediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weight between 38-42 kDa.
Pssm-ID: 426032 [Multi-domain] Cd Length: 207 Bit Score: 42.91 E-value: 8.22e-05
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 28882049 47 LNEIVGNEDTVSRLEVFAREGNvpNIIIAGPPGTGKTTsilcLARALLG--PALKDA-MLELNASNDSMTDGAQQAL 120
Cdd:pfam01078 2 LADVKGQEQAKRALEIAAAGGH--NLLMIGPPGSGKTM----LAKRLPGilPPLTEAeALEVTAIHSVAGLGGDGGL 72
|
|
| PRK14971 |
PRK14971 |
DNA polymerase III subunit gamma/tau; |
41-208 |
9.12e-05 |
|
DNA polymerase III subunit gamma/tau;
Pssm-ID: 237874 [Multi-domain] Cd Length: 614 Bit Score: 44.00 E-value: 9.12e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 41 KYRPVKLNEIVGNEDTVSRLEVFAREGNVPN-IIIAGPPGTGKTT-------SILCLARALLGPALKDA----------- 101
Cdd:PRK14971 10 KYRPSTFESVVGQEALTTTLKNAIATNKLAHaYLFCGPRGVGKTTcarifakTINCQNLTADGEACNECescvafneqrs 89
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 102 --MLELNA-SNDSMTD------------------------------GAQQALRRTMEIYSKTTRFALACNASDKIIEPIQ 148
Cdd:PRK14971 90 ynIHELDAaSNNSVDDirnlieqvrippqigkykiyiidevhmlsqAAFNAFLKTLEEPPSYAIFILATTEKHKILPTIL 169
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 28882049 149 SRCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALN--NLQSTFSG 208
Cdd:PRK14971 170 SRCQIFDFNRIQVADIVNHLQYVASKEGITAEPEALNVIAQKADGGMRDALSifDQVVSFTG 231
|
|
| PRK14958 |
PRK14958 |
DNA polymerase III subunits gamma and tau; Provisional |
119-234 |
9.68e-05 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 184922 [Multi-domain] Cd Length: 509 Bit Score: 43.95 E-value: 9.68e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 119 ALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQA 198
Cdd:PRK14958 138 ALLKTLEEPPSHVKFILATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVEFENAALDLLARAANGSVRDA 217
|
90 100 110
....*....|....*....|....*....|....*..
gi 28882049 199 LNNL-QSTFSGFGFINSENVFKVCDEPHPLLVKEMIQ 234
Cdd:PRK14958 218 LSLLdQSIAYGNGKVLIADVKTMLGTIEPLLLFDILE 254
|
|
| RuvB |
COG2255 |
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, ... |
43-84 |
2.96e-04 |
|
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, recombination and repair];
Pssm-ID: 441856 [Multi-domain] Cd Length: 337 Bit Score: 41.99 E-value: 2.96e-04
10 20 30 40
....*....|....*....|....*....|....*....|....*..
gi 28882049 43 RPVKLNEIVGNEDTVSRLEVF---AREGNVP--NIIIAGPPGTGKTT 84
Cdd:COG2255 23 RPKRLDEYIGQEKVKENLKIFieaAKKRGEAldHVLLYGPPGLGKTT 69
|
|
| PRK06645 |
PRK06645 |
DNA polymerase III subunits gamma and tau; Validated |
36-265 |
3.34e-04 |
|
DNA polymerase III subunits gamma and tau; Validated
Pssm-ID: 180643 [Multi-domain] Cd Length: 507 Bit Score: 42.15 E-value: 3.34e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 36 LPWVEKYRPVKLNEIVGNEDTVSRLEVFAREGNVPN-IIIAGPPGTGKTTSILCLARAL--LGPALKDA----------- 101
Cdd:PRK06645 9 IPFARKYRPSNFAELQGQEVLVKVLSYTILNDRLAGgYLLTGIRGVGKTTSARIIAKAVncSALITENTtiktceqctnc 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 102 ----------MLELNASNDSMTD-------------------------------GAQQALRRTMEIYSKTTRFALACNAS 140
Cdd:PRK06645 89 isfnnhnhpdIIEIDAASKTSVDdirriiesaeykplqgkhkifiidevhmlskGAFNALLKTLEEPPPHIIFIFATTEV 168
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 141 DKIIEPIQSRCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQA---LNNLQSTFSGFGFINSENV 217
Cdd:PRK06645 169 QKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEGSARDAvsiLDQAASMSAKSDNIISPQV 248
|
250 260 270 280
....*....|....*....|....*....|....*....|....*....
gi 28882049 218 F-KVCDEPHPLLVKEMIQHCVNANIDEAYKILAHLWHLGYSPEDIIGNI 265
Cdd:PRK06645 249 InQMLGLVDSSVIIEFVEYIIHRETEKAINLINKLYGSSVNLEIFIESV 297
|
|
| AAA_16 |
pfam13191 |
AAA ATPase domain; This family of domains contain a P-loop motif that is characteriztic of the ... |
49-95 |
5.01e-04 |
|
AAA ATPase domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily.
Pssm-ID: 433025 [Multi-domain] Cd Length: 167 Bit Score: 40.18 E-value: 5.01e-04
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|
gi 28882049 49 EIVGNEDTVSRLEVF---AREGNVPNIIIAGPPGTGKTTSILCLARALLG 95
Cdd:pfam13191 1 RLVGREEELEQLLDAldrVRSGRPPSVLLTGEAGTGKTTLLRELLRALER 50
|
|
| HLD_clamp_RarA |
cd18139 |
helical lid domain of recombination factor protein RarA; Recombination factor RarA ... |
159-203 |
6.24e-04 |
|
helical lid domain of recombination factor protein RarA; Recombination factor RarA (Replication associated recombination gene/protein A, also known as MgsA (Maintenance of genome stability A) or Mgs1 in yeast and WRNIP1 in mammals) is a member of the clamp-loader clade of the AAA+ superfamily. It functions as a tetramer. RarA co-localize with the replication fork throughout the cell cycle and may play a role in the rescue of stalled replication forks.
Pssm-ID: 350841 [Multi-domain] Cd Length: 75 Bit Score: 38.00 E-value: 6.24e-04
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|.
gi 28882049 159 LTDAQILTRLMNVIEKER------VPYTDDGLEAIIFTAQGDMRQALNNLQ 203
Cdd:cd18139 1 LSEEDLEKLLKRALEDKErggdrkVTIDDEALELLAEAADGDARSALNLLE 51
|
|
| PRK09112 |
PRK09112 |
DNA polymerase III subunit delta'; Validated |
110-199 |
7.33e-04 |
|
DNA polymerase III subunit delta'; Validated
Pssm-ID: 169667 [Multi-domain] Cd Length: 351 Bit Score: 40.79 E-value: 7.33e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 110 DSMTDGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDAQILTRLMNVIEKerVPYTDDGLEAIIF 189
Cdd:PRK09112 151 DDMNRNAANAILKTLEEPPARALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSS--QGSDGEITEALLQ 228
|
90
....*....|
gi 28882049 190 TAQGDMRQAL 199
Cdd:PRK09112 229 RSKGSVRKAL 238
|
|
| PRK07003 |
PRK07003 |
DNA polymerase III subunit gamma/tau; |
112-199 |
1.09e-03 |
|
DNA polymerase III subunit gamma/tau;
Pssm-ID: 235906 [Multi-domain] Cd Length: 830 Bit Score: 40.60 E-value: 1.09e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 112 MTDGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTA 191
Cdd:PRK07003 131 LTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIAFEPQALRLLARAA 210
|
....*...
gi 28882049 192 QGDMRQAL 199
Cdd:PRK07003 211 QGSMRDAL 218
|
|
| PRK05563 |
PRK05563 |
DNA polymerase III subunits gamma and tau; Validated |
41-271 |
1.18e-03 |
|
DNA polymerase III subunits gamma and tau; Validated
Pssm-ID: 235505 [Multi-domain] Cd Length: 559 Bit Score: 40.62 E-value: 1.18e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 41 KYRPVKLNEIVGNEDTVSRLEvfaregnvpNIII----------AGPPGTGKTTSILCLARALLGPALKDA--------- 101
Cdd:PRK05563 9 KWRPQTFEDVVGQEHITKTLK---------NAIKqgkishaylfSGPRGTGKTSAAKIFAKAVNCLNPPDGepcneceic 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 102 ----------MLELN-ASNDS-----------------------------M-TDGAQQALRRTME------IyskttrFA 134
Cdd:PRK05563 80 kaitngslmdVIEIDaASNNGvdeirdirdkvkyapseakykvyiidevhMlSTGAFNALLKTLEeppahvI------FI 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 135 LACNASDKIIEPIQSRCAvlRY--TKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQAL------------- 199
Cdd:PRK05563 154 LATTEPHKIPATILSRCQ--RFdfKRISVEDIVERLKYILDKEGIEYEDEALRLIARAAEGGMRDALsildqaisfgdgk 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 200 ----NNLQSTfsgfGFINSENVFKvcdephpllvkeMIQHCVNANIDEAYKILAHLWHLGYSP----EDIIGnIFR---V 268
Cdd:PRK05563 232 vtyeDALEVT----GSVSQEALDD------------LVDAIVEGDVAKALKILEELLDEGKDPnrfiEDLIY-YLRdllL 294
|
...
gi 28882049 269 CKT 271
Cdd:PRK05563 295 VKT 297
|
|
| DEXXQc_Upf1-like |
cd17934 |
DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, ... |
73-94 |
1.23e-03 |
|
DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), coronavirus Nsp13, and similar proteins. They belong to 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: 438708 [Multi-domain] Cd Length: 121 Bit Score: 37.98 E-value: 1.23e-03
|
| AAA_11 |
pfam13086 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
73-102 |
1.61e-03 |
|
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins.
Pssm-ID: 404072 [Multi-domain] Cd Length: 248 Bit Score: 39.25 E-value: 1.61e-03
10 20 30
....*....|....*....|....*....|
gi 28882049 73 IIAGPPGTGKTTSILCLARALLGPALKDAM 102
Cdd:pfam13086 17 LIQGPPGTGKTTTIVELIRQLLSYPATSAA 46
|
|
| CDC6 |
COG1474 |
Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair]; |
42-93 |
1.64e-03 |
|
Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair];
Pssm-ID: 441083 [Multi-domain] Cd Length: 389 Bit Score: 39.83 E-value: 1.64e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*.
gi 28882049 42 YRPvklNEIVGNEDTVSR----LEVFAREGNVPNIIIAGPPGTGKTTSILCLARAL 93
Cdd:COG1474 23 YVP---DRLPHREEEIEElasaLRPALRGERPSNVLIYGPTGTGKTAVAKYVLEEL 75
|
|
| AAA |
pfam00004 |
ATPase family associated with various cellular activities (AAA); AAA family proteins often ... |
72-156 |
2.81e-03 |
|
ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.
Pssm-ID: 459627 [Multi-domain] Cd Length: 130 Bit Score: 37.19 E-value: 2.81e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 72 IIIAGPPGTGKTTsilcLARALLGpALKDAMLELNAS------------------------------------------- 108
Cdd:pfam00004 1 LLLYGPPGTGKTT----LAKAVAK-ELGAPFIEISGSelvskyvgesekrlrelfeaakklapcvifideidalagsrgs 75
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|..
gi 28882049 109 -NDSMTDGAQQALRRTMEIYSKTTR---FALACNASDKIIEPIQSRCAVLRY 156
Cdd:pfam00004 76 gGDSESRRVVNQLLTELDGFTSSNSkviVIAATNRPDKLDPALLGRFDRIIE 127
|
|
| DEXXQc_SETX |
cd18042 |
DEXXQ-box helicase domain of SETX; The RNA/DNA helicase senataxin (SETX) plays a role in ... |
68-120 |
4.24e-03 |
|
DEXXQ-box helicase domain of SETX; The RNA/DNA helicase senataxin (SETX) plays a role in transcription, neurogenesis, and antiviral response. SEXT is an R-loop-associated protein that is thought to function as an RNA/DNA helicase. R-loops consist of RNA/DNA hybrids, formed during transcription when nascent RNA hybridizes to the DNA template strand, displacing the non-template DNA strand. Mutations in SETX are linked to two neurodegenerative disorders: ataxia with oculomotor apraxia type 2 (AOA2) and amyotrophic lateral sclerosis type 4 (ALS4). S. cerevisiae homolog splicing endonuclease 1 (Sen1) is an exclusively nuclear protein, important for nucleolar organization. S. cerevisiae Sen1 and its ortholog, the Schizosaccharomyces pombe Sen1, share conserved domains and belong to the family I class of helicases. Both proteins translocate 5' to 3' and unwind both DNA and RNA duplexes and also RNA/DNA hybrids in vitro. SETX 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: 438712 [Multi-domain] Cd Length: 218 Bit Score: 37.96 E-value: 4.24e-03
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 68 NVPNI-IIAGPPGTGKTTSILCLARALLG------PALKDAMLELNASNDSMTDGAQQAL 120
Cdd:cd18042 15 NSPGItLIQGPPGTGKTKTIVGILSVLLAgkyrkyYEKVKKKLRKLQRNLNNKKKKNRIL 74
|
|
| PRK14952 |
PRK14952 |
DNA polymerase III subunits gamma/tau; |
41-93 |
4.59e-03 |
|
DNA polymerase III subunits gamma/tau;
Pssm-ID: 237866 [Multi-domain] Cd Length: 584 Bit Score: 38.71 E-value: 4.59e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....
gi 28882049 41 KYRPVKLNEIVGNEDTVSRLEVFAREGNVPNI-IIAGPPGTGKTTSILCLARAL 93
Cdd:PRK14952 6 KYRPATFAEVVGQEHVTEPLSSALDAGRINHAyLFSGPRGCGKTSSARILARSL 59
|
|
| PRK12323 |
PRK12323 |
DNA polymerase III subunit gamma/tau; |
112-199 |
4.73e-03 |
|
DNA polymerase III subunit gamma/tau;
Pssm-ID: 237057 [Multi-domain] Cd Length: 700 Bit Score: 38.70 E-value: 4.73e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 28882049 112 MTDGAQQALRRTMEIYSKTTRFALACNASDKIIEPIQSRCAVLRYTKLTDAQILTRLMNVIEKERVPYTDDGLEAIIFTA 191
Cdd:PRK12323 136 LTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIAHEVNALRLLAQAA 215
|
....*...
gi 28882049 192 QGDMRQAL 199
Cdd:PRK12323 216 QGSMRDAL 223
|
|
| VirB11-like_ATPase |
cd01130 |
Type IV secretory pathway component VirB11-like; Type IV secretory pathway component VirB11, ... |
71-95 |
5.17e-03 |
|
Type IV secretory pathway component VirB11-like; Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir (virulence) proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the bacterial Ti (tumor-inducing)-plasmid into plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11-related ATPases include Sulfolobus acidocaldarius FlaI, which plays key roles in archaellum (archaeal flagellum) assembly and motility functions, and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Pssm-ID: 410874 [Multi-domain] Cd Length: 177 Bit Score: 37.13 E-value: 5.17e-03
10 20
....*....|....*....|....*
gi 28882049 71 NIIIAGPPGTGKTTsilcLARALLG 95
Cdd:cd01130 14 NILISGGTGSGKTT----LLNALLS 34
|
|
| DEXXQc_DNA2 |
cd18041 |
DEXXQ-box helicase domain of DNA2; DNA2 (DNA Replication Helicase/Nuclease 2) possesses ... |
73-94 |
5.64e-03 |
|
DEXXQ-box helicase domain of DNA2; DNA2 (DNA Replication Helicase/Nuclease 2) possesses different enzymatic activities, such as single-stranded DNA (ssDNA)-dependent ATPase, 5-3 helicase, and endonuclease activities, and is involved in DNA replication and DNA repair in the nucleus and mitochondrion. It is involved in Okazaki fragment processing by cleaving long flaps that escape FEN1: flaps that are longer than 27 nucleotides are coated by replication protein A complex (RPA), leading to recruit DNA2 which cleaves the flap until it is too short to bind RPA and becomes a substrate for FEN1. It is also involved in 5-end resection of DNA during double-strand break (DSB) repair; it is recruited by BLM and mediates the cleavage of 5-ssDNA, while the 3-ssDNA cleavage is prevented by the presence of RPA. DNA2 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: 350799 [Multi-domain] Cd Length: 203 Bit Score: 37.22 E-value: 5.64e-03
10 20
....*....|....*....|..
gi 28882049 73 IIAGPPGTGKTTSILCLARALL 94
Cdd:cd18041 21 LILGMPGTGKTTTIAALVRILV 42
|
|
| HypB |
COG0378 |
Hydrogenase/urease maturation factor HypB, Ni2+-binding GTPase [Posttranslational modification, ... |
65-123 |
6.58e-03 |
|
Hydrogenase/urease maturation factor HypB, Ni2+-binding GTPase [Posttranslational modification, protein turnover, chaperones];
Pssm-ID: 440147 [Multi-domain] Cd Length: 200 Bit Score: 36.96 E-value: 6.58e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*....
gi 28882049 65 REGNVPNIIIAGPPGTGKTTSILCLARALLGpALKDAMLElnasNDSMTDGAQQALRRT 123
Cdd:COG0378 9 AEKGVLAVNLMGSPGSGKTTLLEKTIRALKD-RLRIAVIE----GDIYTTEDAERLRAA 62
|
|
| HLD_clamp_pol_III_gamma_tau |
cd18137 |
helical lid domain of DNA polymerase III subunits gamma and tau; DNA polymerase III subunit ... |
159-200 |
7.55e-03 |
|
helical lid domain of DNA polymerase III subunits gamma and tau; DNA polymerase III subunit gamma/tau is part of the DNA polymerase III holoenzyme. Gamma and tau subunits are isoforms, both containing the helical lid domain. Gamma interacts with the delta subunit to transfer the beta subunit on the DNA while tau serves as a scaffold to help in the dimerization of the core complex. Both are members of the clamp-loader clade of the AAA+ superfamily.
Pssm-ID: 350839 [Multi-domain] Cd Length: 65 Bit Score: 34.40 E-value: 7.55e-03
10 20 30 40
....*....|....*....|....*....|....*....|..
gi 28882049 159 LTDAQILTRLMNVIEKERVPYTDDGLEAIIFTAQGDMRQALN 200
Cdd:cd18137 1 ISVEDIVGRLAHILEKEGIEIEDEALELIARAAEGSMRDALS 42
|
|
| TIGR02928 |
TIGR02928 |
orc1/cdc6 family replication initiation protein; Members of this protein family are found ... |
40-93 |
9.73e-03 |
|
orc1/cdc6 family replication initiation protein; Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 274354 [Multi-domain] Cd Length: 365 Bit Score: 37.23 E-value: 9.73e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*...
gi 28882049 40 EKYRPvklNEIVGNEDTVSRLEVFARE---GNVP-NIIIAGPPGTGKTTSILCLARAL 93
Cdd:TIGR02928 10 PDYVP---DRIVHRDEQIEELAKALRPilrGSRPsNVFIYGKTGTGKTAVTKYVMKEL 64
|
|
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