|
Name |
Accession |
Description |
Interval |
E-value |
| RFC1 |
pfam08519 |
Replication factor RFC1 C terminal domain; This is the C terminal domain of replication factor ... |
897-1050 |
2.16e-74 |
|
Replication factor RFC1 C terminal domain; This is the C terminal domain of replication factor C, RFC1. RFC complexes hydrolyse ATP and load sliding clamps such as PCNA (proliferating cell nuclear antigen) onto double-stranded DNA. RFC1 is essential for RFC function in vivo.
Pssm-ID: 462507 Cd Length: 158 Bit Score: 242.87 E-value: 2.16e-74
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 897 ICDGDLVDNQIRSKQNWSLLPTQAIYASVVPGELMRGYMSQFPSFPSWLGKHSSMGKHDRTVQDLSLHMSLRTYSSKRTV 976
Cdd:pfam08519 1 ISDGDLVDRMIRGEQQWSLLPTHAVFSSVRPASFMRGSMTGRINFPSWLGKNSKTGKNKRLLQELQYHMRLKTSGDKSEL 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 189339249 977 NMDYLSHIRDALVRPLTSQGVEGVQRVVTLMDTYYLVKEDFDNIMEVSSWG----GKPSTFSKLDPKVKAAFTRAYNK 1050
Cdd:pfam08519 81 RLDYLPLLRKRLTQPLLEEGKDGVDEVIDLMDEYYLTKEDWDNIVELSTWGvgpyGEEDPLKKIDTKVKAAFTRKYNK 158
|
|
| PRK04195 |
PRK04195 |
replication factor C large subunit; Provisional |
566-985 |
2.35e-52 |
|
replication factor C large subunit; Provisional
Pssm-ID: 235250 [Multi-domain] Cd Length: 482 Bit Score: 191.67 E-value: 2.35e-52
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 566 LLWVDKYKPTSLKNIIGQQgdqSCANKLLRWLRNWHKSSPEekkhaakfgkvaskddgssfKAALLSGPPGVGKTTTASL 645
Cdd:PRK04195 2 MPWVEKYRPKTLSDVVGNE---KAKEQLREWIESWLKGKPK--------------------KALLLYGPPGVGKTSLAHA 58
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 646 VCQELGYSYVELNASDTRSKNSLKAIVAESLNNTSIKGfytsgaspsvSARHALIMDEVDGMAGNEDRGGIQELIGLIKH 725
Cdd:PRK04195 59 LANDYGWEVIELNASDQRTADVIERVAGEAATSGSLFG----------ARRKLILLDEVDGIHGNEDRGGARAILELIKK 128
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 726 TKIPIICMCNDRNHPKIRSLVHYCFDLRFQRPRVEQIKSAMLSIAFKEGLKIPPPAMNEIILGANQDVRQVLHNLSMWCA 805
Cdd:PRK04195 129 AKQPIILTANDPYDPSLRELRNACLMIEFKRLSTRSIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSAINDLQAIAE 208
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 806 QSKVLTYDQAKADSQRakkDIRLGPFDVTRKVFAA-GEETAHMSLMDkSDLFFHDYSiapLFVQEN----YLHVKPVAAG 880
Cdd:PRK04195 209 GYGKLTLEDVKTLGRR---DREESIFDALDAVFKArNADQALEASYD-VDEDPDDLI---EWIDENipkeYDDPEDIARA 281
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 881 GDMkkhlmlLSRAadsicdgDLVDNQIRSKQNWSLLPtqaiYASvvpgELMRG---YMSQFP-------SFPSWLGKHSS 950
Cdd:PRK04195 282 YDA------LSRA-------DIFLGRVKRTQNYDLWR----YAS----DLMTAgvaLAKEKKkrgftryQPPSYWRLLSK 340
|
410 420 430
....*....|....*....|....*....|....*
gi 189339249 951 MGKHDRTVQDLSLHMSLRTYSSKRTVNMDYLSHIR 985
Cdd:PRK04195 341 TKEKRETRDSIAKKIAEKLHTSKRKVRREVLPFLS 375
|
|
| BRCT_RFC1 |
cd17752 |
BRCT domain of replication factor C subunit 1 (RFC1) and similar proteins; RFC1, also termed ... |
397-475 |
1.91e-47 |
|
BRCT domain of replication factor C subunit 1 (RFC1) and similar proteins; RFC1, also termed activator 1 140 kDa subunit, or A1 140 kDa subunit, or activator 1 large subunit, or activator 1 subunit 1, or replication factor C 140 kDa subunit, or RF-C 140 kDa subunit, or RFC140, is the large subunit of replication factor C (RFC), which is a heteropentameric protein essential for DNA replication and repair. RFC1 can bind single- or double-stranded DNA. It could play a role in DNA transcription regulation as well as DNA replication and/or repair. The Trp-X-X-X-Cys/Ser signature motif of the BRCT family is not conserved in this family.
Pssm-ID: 349383 [Multi-domain] Cd Length: 79 Bit Score: 163.54 E-value: 1.91e-47
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 189339249 397 GAENCLEGLTFVITGVLESIEREEAKSLIERYGGKVTGNVSKKTSYLVMGRDSGQSKSDKAAALGTKILDEDGLLDLIR 475
Cdd:cd17752 1 GAPNCLEGLTFVITGVLESLEREEAEDLIKRYGGKVTGSVSKKTSYLVVGRDAGPSKLEKAKELGTKIIDEDGLFDLIR 79
|
|
| Lig |
COG0272 |
NAD-dependent DNA ligase [Replication, recombination and repair]; |
393-474 |
2.37e-28 |
|
NAD-dependent DNA ligase [Replication, recombination and repair];
Pssm-ID: 440042 [Multi-domain] Cd Length: 668 Bit Score: 122.44 E-value: 2.37e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 393 EIPKGAENCLEGLTFVITGVLESIEREEAKSLIERYGGKVTGNVSKKTSYLVMGRDSGqSKSDKAAALGTKILDEDGLLD 472
Cdd:COG0272 587 EAEAAADSPLAGKTFVLTGTLETMTRDEAKELIEALGGKVSGSVSKKTDYVVAGENAG-SKLDKAEELGVPILDEAEFLE 665
|
..
gi 189339249 473 LI 474
Cdd:COG0272 666 LL 667
|
|
| ligA |
PRK07956 |
NAD-dependent DNA ligase LigA; Validated |
387-474 |
2.36e-25 |
|
NAD-dependent DNA ligase LigA; Validated
Pssm-ID: 236137 [Multi-domain] Cd Length: 665 Bit Score: 112.91 E-value: 2.36e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 387 KALGSKEIPKGAENCLEGLTFVITGVLESIEREEAKSLIERYGGKVTGNVSKKTSYLVMGRDSGqSKSDKAAALGTKILD 466
Cdd:PRK07956 576 LEAGVNMEYKGEEVDLAGKTVVLTGTLEQLSRDEAKEKLEALGAKVSGSVSKKTDLVVAGEAAG-SKLAKAQELGIEVLD 654
|
....*...
gi 189339249 467 EDGLLDLI 474
Cdd:PRK07956 655 EEEFLRLL 662
|
|
| AAA |
pfam00004 |
ATPase family associated with various cellular activities (AAA); AAA family proteins often ... |
630-758 |
3.26e-17 |
|
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: 79.17 E-value: 3.26e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 630 LLSGPPGVGKTTTASLVCQELGYSYVELNASDTRSKnslkaIVAESLNNtsIKGFYT--SGASPSVsarhaLIMDEVDGM 707
Cdd:pfam00004 2 LLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSK-----YVGESEKR--LRELFEaaKKLAPCV-----IFIDEIDAL 69
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 189339249 708 AGNEDRGGIQELIGLI------------KHTKIPIICMCNdrNHPKIRSLVHYCFDLRFQRPR 758
Cdd:pfam00004 70 AGSRGSGGDSESRRVVnqllteldgftsSNSKVIVIAATN--RPDKLDPALLGRFDRIIEFPL 130
|
|
| BRCT |
pfam00533 |
BRCA1 C Terminus (BRCT) domain; The BRCT domain is found predominantly in proteins involved in ... |
399-474 |
2.88e-16 |
|
BRCA1 C Terminus (BRCT) domain; The BRCT domain is found predominantly in proteins involved in cell cycle checkpoint functions responsive to DNA damage. The BRCT domain of XRCC1 forms a homodimer in the crystal structure. This suggests that pairs of BRCT domains associate as homo- or heterodimers. BRCT domains are often found as tandem-repeat pairs. Structures of the BRCA1 BRCT domains revealed a basis for a widely utilized head-to-tail BRCT-BRCT oligomerization mode. This conserved tandem BRCT architecture facilitates formation of the canonical BRCT phospho-peptide interaction cleft at a groove between the BRCT domains. Disease associated missense and nonsense mutations in the BRCA1 BRCT domains disrupt peptide binding by directly occluding this peptide binding groove, or by disrupting key conserved BRCT core folding determinants.
Pssm-ID: 425736 [Multi-domain] Cd Length: 75 Bit Score: 74.25 E-value: 2.88e-16
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 189339249 399 ENCLEGLTFVITGvLESIEREEAKSLIERYGGKVTGNVSKKTSYLVMgrDSGQSKSDKAAALGTKILDEDGLLDLI 474
Cdd:pfam00533 3 EKLFSGKTFVITG-LDGLERDELKELIEKLGGKVTDSLSKKTTHVIV--EARTKKYLKAKELGIPIVTEEWLLDCI 75
|
|
| AAA |
cd00009 |
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ... |
616-754 |
5.45e-15 |
|
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: 73.33 E-value: 5.45e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 616 KVASKDDGSSFKAALLSGPPGVGKTTTASLVCQEL---GYSYVELNASDTRSKNSLKAIVAESLNNtsIKGFYTSGASPS 692
Cdd:cd00009 9 ALREALELPPPKNLLLYGPPGTGKTTLARAIANELfrpGAPFLYLNASDLLEGLVVAELFGHFLVR--LLFELAEKAKPG 86
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 189339249 693 VsarhaLIMDEVDGMAGNEDRGGIQEL----IGLIKHTKIPIICMCNDRNHPKIRSLVHYCFDLRF 754
Cdd:cd00009 87 V-----LFIDEIDSLSRGAQNALLRVLetlnDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRI 147
|
|
| BRCT |
smart00292 |
breast cancer carboxy-terminal domain; |
399-474 |
2.57e-14 |
|
breast cancer carboxy-terminal domain;
Pssm-ID: 214602 [Multi-domain] Cd Length: 78 Bit Score: 68.94 E-value: 2.57e-14
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 189339249 399 ENCLEGLTFVITGVLESIEREEAKSLIERYGGKVTGNVSKKTSYLVMGRDSGQSKSDKAAA--LGTKILDEDGLLDLI 474
Cdd:smart00292 1 PKLFKGKTFYITGSFDKEERDELKELIEALGGKVTSSLSSKTTTHVIVGSPEGGKLELLKAiaLGIPIVKEEWLLDCL 78
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
630-760 |
2.24e-09 |
|
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: 57.38 E-value: 2.24e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 630 LLSGPPGVGKTTTASLVCQEL---GYSYVELNASDTRSKNSLKAIVaesLNNTSIKGFYTSGASPSVSARHA-------L 699
Cdd:smart00382 6 LIVGPPGSGKTTLARALARELgppGGGVIYIDGEDILEEVLDQLLL---IIVGGKKASGSGELRLRLALALArklkpdvL 82
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 189339249 700 IMDEVDGMAGNEDRGGIQE------LIGLIKHTKIPIICMCNDRNHPKIRSLVHyCFDLRFQRPRVE 760
Cdd:smart00382 83 ILDEITSLLDAEQEALLLLleelrlLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148
|
|
| PTZ00121 |
PTZ00121 |
MAEBL; Provisional |
19-562 |
2.11e-08 |
|
MAEBL; Provisional
Pssm-ID: 173412 [Multi-domain] Cd Length: 2084 Bit Score: 59.00 E-value: 2.11e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 19 ETVKKNEKTKPSEGTVKGKQGVKEAKVNNPCKEDASRPKQHNKKKRIIYDSDSESEETVQVKNAK--KKSEKLPVSCKPG 96
Cdd:PTZ00121 1287 EEKKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEaeAAADEAEAAEEKA 1366
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 97 KISRKDPvtyiSETDEDDDFLCKKAASKSKengvstnsylgASNVKKNEENTKTKSKPLSPIKLTPTSVLDyfGTESVQR 176
Cdd:PTZ00121 1367 EAAEKKK----EEAKKKADAAKKKAEEKKK-----------ADEAKKKAEEDKKKADELKKAAAAKKKADE--AKKKAEE 1429
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 177 SGKKMVASKKKESSQTPDDSRLNDEAIAKQLQLDEDAELERQLHEDEEFARTLALLDE-EPKTKKARKDSEEGESFSPAK 255
Cdd:PTZ00121 1430 KKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEaKKKAEEAKKKADEAKKAAEAK 1509
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 256 --AELSKAAKQKSPANEhfsiGRKTYSPAKYGKGRGSEGTK--------QPCRSAHQKEACSSLKASSKSALM---KAQE 322
Cdd:PTZ00121 1510 kkADEAKKAEEAKKADE----AKKAEEAKKADEAKKAEEKKkadelkkaEELKKAEEKKKAEEAKKAEEDKNMalrKAEE 1585
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 323 ENSYKETELLAAKRESAIEPKGEKTTPRKTKGSPTKRESVSPEDSEKKRTnyqayrsylnrEGPKALGSKEIPKGaencl 402
Cdd:PTZ00121 1586 AKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKKV-----------EQLKKKEAEEKKKA----- 1649
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 403 egltfvitgvlESIEREEAKSLIERYGGKVTGNVSKKTSYLVmgRDSGQSKSDKAAALGTKILDEDGLLDLIRTMPGKKS 482
Cdd:PTZ00121 1650 -----------EELKKAEEENKIKAAEEAKKAEEDKKKAEEA--KKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKK 1716
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 483 KYEIAAEAEmKKEKSKLERTPQKNDQGKRKLSPTKRELEPKKSKLTPLKHSPRKAV---KEEERVCPRGLDAKEPHGSHS 559
Cdd:PTZ00121 1717 KAEELKKAE-EENKIKAEEAKKEAEEDKKKAEEAKKDEEEKKKIAHLKKEEEKKAEeirKEKEAVIEEELDEEDEKRRME 1795
|
...
gi 189339249 560 ASR 562
Cdd:PTZ00121 1796 VDK 1798
|
|
| HolB |
COG0470 |
DNA polymerase III, delta prime subunit [Replication, recombination and repair]; |
628-803 |
6.16e-07 |
|
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
Pssm-ID: 440238 [Multi-domain] Cd Length: 289 Bit Score: 52.28 E-value: 6.16e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 628 AALLSGPPGVGKTTTA-----SLVCQELGYS------------------YVELNA---SDTRSKNSLKAIVaESLNNTSI 681
Cdd:COG0470 20 ALLLHGPPGIGKTTLAlalarDLLCENPEGGkacgqchsrlmaagnhpdLLELNPeekSDQIGIDQIRELG-EFLSLTPL 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 682 KGfytsgaspsvsARHALIMDEVDGMAGNEDRGGIQELIGLIKHTkiPIICMCNDRNH--PKIRSLvhyCFDLRFQRPRV 759
Cdd:COG0470 99 EG-----------GRKVVIIDEADAMNEAAANALLKTLEEPPKNT--PFILIANDPSRllPTIRSR---CQVIRFRPPSE 162
|
170 180 190 200
....*....|....*....|....*....|....*....|....
gi 189339249 760 EQIKSAMlsiafkEGLKIPPPAMNEIILGANQDVRQVLHNLSMW 803
Cdd:COG0470 163 EEALAWL------REEGVDEDALEAILRLAGGDPRAAINLLQAL 200
|
|
| rad24 |
TIGR00602 |
checkpoint protein rad24; All proteins in this family for which functions are known are ... |
531-656 |
1.67e-04 |
|
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: 45.72 E-value: 1.67e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 531 KHSPRKAVKEEERvcpRGLDAKEPHGSHSASREEC--LLWVDKYKPTSLKNIIgqqgdqscankllrwlrnWHKSSPEEK 608
Cdd:TIGR00602 38 KNSPSTDIHARKR---GFLSLEQDTGLELSSENLDgnEPWVEKYKPETQHELA------------------VHKKKIEEV 96
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|
gi 189339249 609 KHA--AKFGKVASKddgssfKAALLSGPPGVGKTTTASLVCQELGYSYVE 656
Cdd:TIGR00602 97 ETWlkAQVLENAPK------RILLITGPSGCGKSTTIKILSKELGIQVQE 140
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| RFC1 |
pfam08519 |
Replication factor RFC1 C terminal domain; This is the C terminal domain of replication factor ... |
897-1050 |
2.16e-74 |
|
Replication factor RFC1 C terminal domain; This is the C terminal domain of replication factor C, RFC1. RFC complexes hydrolyse ATP and load sliding clamps such as PCNA (proliferating cell nuclear antigen) onto double-stranded DNA. RFC1 is essential for RFC function in vivo.
Pssm-ID: 462507 Cd Length: 158 Bit Score: 242.87 E-value: 2.16e-74
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 897 ICDGDLVDNQIRSKQNWSLLPTQAIYASVVPGELMRGYMSQFPSFPSWLGKHSSMGKHDRTVQDLSLHMSLRTYSSKRTV 976
Cdd:pfam08519 1 ISDGDLVDRMIRGEQQWSLLPTHAVFSSVRPASFMRGSMTGRINFPSWLGKNSKTGKNKRLLQELQYHMRLKTSGDKSEL 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 189339249 977 NMDYLSHIRDALVRPLTSQGVEGVQRVVTLMDTYYLVKEDFDNIMEVSSWG----GKPSTFSKLDPKVKAAFTRAYNK 1050
Cdd:pfam08519 81 RLDYLPLLRKRLTQPLLEEGKDGVDEVIDLMDEYYLTKEDWDNIVELSTWGvgpyGEEDPLKKIDTKVKAAFTRKYNK 158
|
|
| PRK04195 |
PRK04195 |
replication factor C large subunit; Provisional |
566-985 |
2.35e-52 |
|
replication factor C large subunit; Provisional
Pssm-ID: 235250 [Multi-domain] Cd Length: 482 Bit Score: 191.67 E-value: 2.35e-52
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 566 LLWVDKYKPTSLKNIIGQQgdqSCANKLLRWLRNWHKSSPEekkhaakfgkvaskddgssfKAALLSGPPGVGKTTTASL 645
Cdd:PRK04195 2 MPWVEKYRPKTLSDVVGNE---KAKEQLREWIESWLKGKPK--------------------KALLLYGPPGVGKTSLAHA 58
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 646 VCQELGYSYVELNASDTRSKNSLKAIVAESLNNTSIKGfytsgaspsvSARHALIMDEVDGMAGNEDRGGIQELIGLIKH 725
Cdd:PRK04195 59 LANDYGWEVIELNASDQRTADVIERVAGEAATSGSLFG----------ARRKLILLDEVDGIHGNEDRGGARAILELIKK 128
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 726 TKIPIICMCNDRNHPKIRSLVHYCFDLRFQRPRVEQIKSAMLSIAFKEGLKIPPPAMNEIILGANQDVRQVLHNLSMWCA 805
Cdd:PRK04195 129 AKQPIILTANDPYDPSLRELRNACLMIEFKRLSTRSIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSAINDLQAIAE 208
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 806 QSKVLTYDQAKADSQRakkDIRLGPFDVTRKVFAA-GEETAHMSLMDkSDLFFHDYSiapLFVQEN----YLHVKPVAAG 880
Cdd:PRK04195 209 GYGKLTLEDVKTLGRR---DREESIFDALDAVFKArNADQALEASYD-VDEDPDDLI---EWIDENipkeYDDPEDIARA 281
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 881 GDMkkhlmlLSRAadsicdgDLVDNQIRSKQNWSLLPtqaiYASvvpgELMRG---YMSQFP-------SFPSWLGKHSS 950
Cdd:PRK04195 282 YDA------LSRA-------DIFLGRVKRTQNYDLWR----YAS----DLMTAgvaLAKEKKkrgftryQPPSYWRLLSK 340
|
410 420 430
....*....|....*....|....*....|....*
gi 189339249 951 MGKHDRTVQDLSLHMSLRTYSSKRTVNMDYLSHIR 985
Cdd:PRK04195 341 TKEKRETRDSIAKKIAEKLHTSKRKVRREVLPFLS 375
|
|
| BRCT_RFC1 |
cd17752 |
BRCT domain of replication factor C subunit 1 (RFC1) and similar proteins; RFC1, also termed ... |
397-475 |
1.91e-47 |
|
BRCT domain of replication factor C subunit 1 (RFC1) and similar proteins; RFC1, also termed activator 1 140 kDa subunit, or A1 140 kDa subunit, or activator 1 large subunit, or activator 1 subunit 1, or replication factor C 140 kDa subunit, or RF-C 140 kDa subunit, or RFC140, is the large subunit of replication factor C (RFC), which is a heteropentameric protein essential for DNA replication and repair. RFC1 can bind single- or double-stranded DNA. It could play a role in DNA transcription regulation as well as DNA replication and/or repair. The Trp-X-X-X-Cys/Ser signature motif of the BRCT family is not conserved in this family.
Pssm-ID: 349383 [Multi-domain] Cd Length: 79 Bit Score: 163.54 E-value: 1.91e-47
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 189339249 397 GAENCLEGLTFVITGVLESIEREEAKSLIERYGGKVTGNVSKKTSYLVMGRDSGQSKSDKAAALGTKILDEDGLLDLIR 475
Cdd:cd17752 1 GAPNCLEGLTFVITGVLESLEREEAEDLIKRYGGKVTGSVSKKTSYLVVGRDAGPSKLEKAKELGTKIIDEDGLFDLIR 79
|
|
| Lig |
COG0272 |
NAD-dependent DNA ligase [Replication, recombination and repair]; |
393-474 |
2.37e-28 |
|
NAD-dependent DNA ligase [Replication, recombination and repair];
Pssm-ID: 440042 [Multi-domain] Cd Length: 668 Bit Score: 122.44 E-value: 2.37e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 393 EIPKGAENCLEGLTFVITGVLESIEREEAKSLIERYGGKVTGNVSKKTSYLVMGRDSGqSKSDKAAALGTKILDEDGLLD 472
Cdd:COG0272 587 EAEAAADSPLAGKTFVLTGTLETMTRDEAKELIEALGGKVSGSVSKKTDYVVAGENAG-SKLDKAEELGVPILDEAEFLE 665
|
..
gi 189339249 473 LI 474
Cdd:COG0272 666 LL 667
|
|
| ligA |
PRK07956 |
NAD-dependent DNA ligase LigA; Validated |
387-474 |
2.36e-25 |
|
NAD-dependent DNA ligase LigA; Validated
Pssm-ID: 236137 [Multi-domain] Cd Length: 665 Bit Score: 112.91 E-value: 2.36e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 387 KALGSKEIPKGAENCLEGLTFVITGVLESIEREEAKSLIERYGGKVTGNVSKKTSYLVMGRDSGqSKSDKAAALGTKILD 466
Cdd:PRK07956 576 LEAGVNMEYKGEEVDLAGKTVVLTGTLEQLSRDEAKEKLEALGAKVSGSVSKKTDLVVAGEAAG-SKLAKAQELGIEVLD 654
|
....*...
gi 189339249 467 EDGLLDLI 474
Cdd:PRK07956 655 EEEFLRLL 662
|
|
| BRCT_DNA_ligase_like |
cd17748 |
BRCT domain of bacterial NAD-dependent DNA ligase (LigA) and similar proteins; LigA, also ... |
402-473 |
2.17e-24 |
|
BRCT domain of bacterial NAD-dependent DNA ligase (LigA) and similar proteins; LigA, also called NAD(+)-dependent polydeoxyribonucleotide synthase, catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double-stranded DNA using NAD as a coenzyme and as the energy source for the reaction. It is essential for DNA replication and repair of damaged DNA. The Trp-X-X-X-Cys/Ser signature motif of the BRCT family is not conserved in this family.
Pssm-ID: 349379 [Multi-domain] Cd Length: 76 Bit Score: 97.55 E-value: 2.17e-24
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 189339249 402 LEGLTFVITGVLESIEREEAKSLIERYGGKVTGNVSKKTSYLVMGRDSGQSKSD----KAAALGTKILDEDGLLDL 473
Cdd:cd17748 1 LAGKTFVFTGTLSSMSRDEAEELIEALGGKVQSSVSKKTDYLVVGDNAGSKLKKgeelKAKGLGIKIISEEEFLDL 76
|
|
| AAA |
pfam00004 |
ATPase family associated with various cellular activities (AAA); AAA family proteins often ... |
630-758 |
3.26e-17 |
|
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: 79.17 E-value: 3.26e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 630 LLSGPPGVGKTTTASLVCQELGYSYVELNASDTRSKnslkaIVAESLNNtsIKGFYT--SGASPSVsarhaLIMDEVDGM 707
Cdd:pfam00004 2 LLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSK-----YVGESEKR--LRELFEaaKKLAPCV-----IFIDEIDAL 69
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 189339249 708 AGNEDRGGIQELIGLI------------KHTKIPIICMCNdrNHPKIRSLVHYCFDLRFQRPR 758
Cdd:pfam00004 70 AGSRGSGGDSESRRVVnqllteldgftsSNSKVIVIAATN--RPDKLDPALLGRFDRIIEFPL 130
|
|
| ligA |
PRK14351 |
NAD-dependent DNA ligase LigA; Provisional |
400-472 |
1.20e-16 |
|
NAD-dependent DNA ligase LigA; Provisional
Pssm-ID: 184640 [Multi-domain] Cd Length: 689 Bit Score: 85.19 E-value: 1.20e-16
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 189339249 400 NCLEGLTFVITGVLESIEREEAKSLIERYGGKVTGNVSKKTSYLVMGRDSGQSKSDKAAALGTKILDED---GLLD 472
Cdd:PRK14351 608 DALDGLTFVFTGSLSGYTRSEAQELVEAHGGNATGSVSGNTDYLVVGENPGQSKRDDAEANDVPTLDEEefeELLA 683
|
|
| BRCT |
pfam00533 |
BRCA1 C Terminus (BRCT) domain; The BRCT domain is found predominantly in proteins involved in ... |
399-474 |
2.88e-16 |
|
BRCA1 C Terminus (BRCT) domain; The BRCT domain is found predominantly in proteins involved in cell cycle checkpoint functions responsive to DNA damage. The BRCT domain of XRCC1 forms a homodimer in the crystal structure. This suggests that pairs of BRCT domains associate as homo- or heterodimers. BRCT domains are often found as tandem-repeat pairs. Structures of the BRCA1 BRCT domains revealed a basis for a widely utilized head-to-tail BRCT-BRCT oligomerization mode. This conserved tandem BRCT architecture facilitates formation of the canonical BRCT phospho-peptide interaction cleft at a groove between the BRCT domains. Disease associated missense and nonsense mutations in the BRCA1 BRCT domains disrupt peptide binding by directly occluding this peptide binding groove, or by disrupting key conserved BRCT core folding determinants.
Pssm-ID: 425736 [Multi-domain] Cd Length: 75 Bit Score: 74.25 E-value: 2.88e-16
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 189339249 399 ENCLEGLTFVITGvLESIEREEAKSLIERYGGKVTGNVSKKTSYLVMgrDSGQSKSDKAAALGTKILDEDGLLDLI 474
Cdd:pfam00533 3 EKLFSGKTFVITG-LDGLERDELKELIEKLGGKVTDSLSKKTTHVIV--EARTKKYLKAKELGIPIVTEEWLLDCI 75
|
|
| AAA |
cd00009 |
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ... |
616-754 |
5.45e-15 |
|
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: 73.33 E-value: 5.45e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 616 KVASKDDGSSFKAALLSGPPGVGKTTTASLVCQEL---GYSYVELNASDTRSKNSLKAIVAESLNNtsIKGFYTSGASPS 692
Cdd:cd00009 9 ALREALELPPPKNLLLYGPPGTGKTTLARAIANELfrpGAPFLYLNASDLLEGLVVAELFGHFLVR--LLFELAEKAKPG 86
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 189339249 693 VsarhaLIMDEVDGMAGNEDRGGIQEL----IGLIKHTKIPIICMCNDRNHPKIRSLVHYCFDLRF 754
Cdd:cd00009 87 V-----LFIDEIDSLSRGAQNALLRVLetlnDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRI 147
|
|
| BRCT |
smart00292 |
breast cancer carboxy-terminal domain; |
399-474 |
2.57e-14 |
|
breast cancer carboxy-terminal domain;
Pssm-ID: 214602 [Multi-domain] Cd Length: 78 Bit Score: 68.94 E-value: 2.57e-14
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 189339249 399 ENCLEGLTFVITGVLESIEREEAKSLIERYGGKVTGNVSKKTSYLVMGRDSGQSKSDKAAA--LGTKILDEDGLLDLI 474
Cdd:smart00292 1 PKLFKGKTFYITGSFDKEERDELKELIEALGGKVTSSLSSKTTTHVIVGSPEGGKLELLKAiaLGIPIVKEEWLLDCL 78
|
|
| HLD_clamp_RFC |
cd18140 |
helical lid domain of replication factor C subunit; Replication factor C (RFC) is five-protein ... |
757-813 |
3.65e-11 |
|
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: 59.46 E-value: 3.65e-11
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*..
gi 189339249 757 PRVEQIKSAMLSIAFKEGLKIPPPAMNEIILGANQDVRQVLHNLSMWCAQSKVLTYD 813
Cdd:cd18140 1 LSKEQIVKRLREICKKEGVKIDEEALEAIAEKSEGDMRKAINDLQAAAAGGGVITEE 57
|
|
| PLN03025 |
PLN03025 |
replication factor C subunit; Provisional |
568-800 |
4.79e-11 |
|
replication factor C subunit; Provisional
Pssm-ID: 178596 [Multi-domain] Cd Length: 319 Bit Score: 65.52 E-value: 4.79e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 568 WVDKYKPTSLKNIIGQQgdqscankllrwlrnwhksspeekKHAAKFGKVASkdDGSsFKAALLSGPPGVGKTTTA-SLV 646
Cdd:PLN03025 3 WVEKYRPTKLDDIVGNE------------------------DAVSRLQVIAR--DGN-MPNLILSGPPGTGKTTSIlALA 55
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 647 CQELGYSY----VELNASDTRSKNSLKaivaeslnnTSIKGFytsgASPSVS---ARHAL-IMDEVDGMAGnedrGGIQE 718
Cdd:PLN03025 56 HELLGPNYkeavLELNASDDRGIDVVR---------NKIKMF----AQKKVTlppGRHKIvILDEADSMTS----GAQQA 118
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 719 LIGLIK----HTKIPIICMCNDRNHPKIRSlvhYCFDLRFQRPRVEQIKSAMLSIAFKEGLKIPPPAMNEIILGANQDVR 794
Cdd:PLN03025 119 LRRTMEiysnTTRFALACNTSSKIIEPIQS---RCAIVRFSRLSDQEILGRLMKVVEAEKVPYVPEGLEAIIFTADGDMR 195
|
....*.
gi 189339249 795 QVLHNL 800
Cdd:PLN03025 196 QALNNL 201
|
|
| BRCT |
cd00027 |
C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains; The ... |
405-472 |
1.56e-09 |
|
C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains; The BRCT (BRCA1 C-terminus) domain is found within many DNA damage repair and cell cycle checkpoint proteins. BRCT domains interact with each other forming homo/hetero BRCT multimers, but are also involved in BRCT-non-BRCT interactions and interactions within DNA strand breaks. BRCT tandem repeats bind to phosphopeptides; it has been shown that the repeats in human BRCA1 bind specifically to pS-X-X-F motifs, mediating the interaction between BRCA1 and the DNA helicase BACH1, or BRCA1 and CtIP, a transcriptional corepressor. It is assumed that BRCT repeats play similar roles in many signaling pathways associated with the response to DNA damage.
Pssm-ID: 349339 [Multi-domain] Cd Length: 68 Bit Score: 55.06 E-value: 1.56e-09
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 189339249 405 LTFVITGvLESIEREEAKSLIERYGGKVTGNVSKKTSYLVMGRDSGQSKSDKAAALGTKILDEDGLLD 472
Cdd:cd00027 1 LVICFSG-LDDEEREELKKLIEALGGKVSESLSSKVTHLIAKSPSGEKYYLAALAWGIPIVSPEWLLD 67
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
630-760 |
2.24e-09 |
|
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: 57.38 E-value: 2.24e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 630 LLSGPPGVGKTTTASLVCQEL---GYSYVELNASDTRSKNSLKAIVaesLNNTSIKGFYTSGASPSVSARHA-------L 699
Cdd:smart00382 6 LIVGPPGSGKTTLARALARELgppGGGVIYIDGEDILEEVLDQLLL---IIVGGKKASGSGELRLRLALALArklkpdvL 82
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 189339249 700 IMDEVDGMAGNEDRGGIQE------LIGLIKHTKIPIICMCNDRNHPKIRSLVHyCFDLRFQRPRVE 760
Cdd:smart00382 83 ILDEITSLLDAEQEALLLLleelrlLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148
|
|
| rfc |
PRK00440 |
replication factor C small subunit; Reviewed |
566-827 |
1.20e-08 |
|
replication factor C small subunit; Reviewed
Pssm-ID: 234763 [Multi-domain] Cd Length: 319 Bit Score: 57.96 E-value: 1.20e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 566 LLWVDKYKPTSLKNIIGQQgdqscankllrwlrnwhksspEEKKHAAKFgkVASKDdgssFKAALLSGPPGVGKTTTASL 645
Cdd:PRK00440 5 EIWVEKYRPRTLDEIVGQE---------------------EIVERLKSY--VKEKN----MPHLLFAGPPGTGKTTAALA 57
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 646 VCQEL-GYSY----VELNASDTRSKNSLKaivaeslnnTSIKGFytSGASPSVSARHALI-MDEVDGM---AGNEDRgGI 716
Cdd:PRK00440 58 LARELyGEDWrenfLELNASDERGIDVIR---------NKIKEF--ARTAPVGGAPFKIIfLDEADNLtsdAQQALR-RT 125
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 717 QELIGliKHTKIPIICmcndrNHP-KI------RslvhyCFDLRFQRPRVEQIKSAMLSIAFKEGLKIPPPAMNEIILGA 789
Cdd:PRK00440 126 MEMYS--QNTRFILSC-----NYSsKIidpiqsR-----CAVFRFSPLKKEAVAERLRYIAENEGIEITDDALEAIYYVS 193
|
250 260 270
....*....|....*....|....*....|....*....
gi 189339249 790 NQDVRQVLHNLSMWCAQSKVLTYDQAKADSQRAK-KDIR 827
Cdd:PRK00440 194 EGDMRKAINALQAAAATGKEVTEEAVYKITGTARpEEIR 232
|
|
| PTZ00121 |
PTZ00121 |
MAEBL; Provisional |
19-562 |
2.11e-08 |
|
MAEBL; Provisional
Pssm-ID: 173412 [Multi-domain] Cd Length: 2084 Bit Score: 59.00 E-value: 2.11e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 19 ETVKKNEKTKPSEGTVKGKQGVKEAKVNNPCKEDASRPKQHNKKKRIIYDSDSESEETVQVKNAK--KKSEKLPVSCKPG 96
Cdd:PTZ00121 1287 EEKKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEaeAAADEAEAAEEKA 1366
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 97 KISRKDPvtyiSETDEDDDFLCKKAASKSKengvstnsylgASNVKKNEENTKTKSKPLSPIKLTPTSVLDyfGTESVQR 176
Cdd:PTZ00121 1367 EAAEKKK----EEAKKKADAAKKKAEEKKK-----------ADEAKKKAEEDKKKADELKKAAAAKKKADE--AKKKAEE 1429
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 177 SGKKMVASKKKESSQTPDDSRLNDEAIAKQLQLDEDAELERQLHEDEEFARTLALLDE-EPKTKKARKDSEEGESFSPAK 255
Cdd:PTZ00121 1430 KKKADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEaKKKAEEAKKKADEAKKAAEAK 1509
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 256 --AELSKAAKQKSPANEhfsiGRKTYSPAKYGKGRGSEGTK--------QPCRSAHQKEACSSLKASSKSALM---KAQE 322
Cdd:PTZ00121 1510 kkADEAKKAEEAKKADE----AKKAEEAKKADEAKKAEEKKkadelkkaEELKKAEEKKKAEEAKKAEEDKNMalrKAEE 1585
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 323 ENSYKETELLAAKRESAIEPKGEKTTPRKTKGSPTKRESVSPEDSEKKRTnyqayrsylnrEGPKALGSKEIPKGaencl 402
Cdd:PTZ00121 1586 AKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKKV-----------EQLKKKEAEEKKKA----- 1649
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 403 egltfvitgvlESIEREEAKSLIERYGGKVTGNVSKKTSYLVmgRDSGQSKSDKAAALGTKILDEDGLLDLIRTMPGKKS 482
Cdd:PTZ00121 1650 -----------EELKKAEEENKIKAAEEAKKAEEDKKKAEEA--KKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEKK 1716
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 483 KYEIAAEAEmKKEKSKLERTPQKNDQGKRKLSPTKRELEPKKSKLTPLKHSPRKAV---KEEERVCPRGLDAKEPHGSHS 559
Cdd:PTZ00121 1717 KAEELKKAE-EENKIKAEEAKKEAEEDKKKAEEAKKDEEEKKKIAHLKKEEEKKAEeirKEKEAVIEEELDEEDEKRRME 1795
|
...
gi 189339249 560 ASR 562
Cdd:PTZ00121 1796 VDK 1798
|
|
| PRK13342 |
PRK13342 |
recombination factor protein RarA; Reviewed |
570-680 |
2.95e-08 |
|
recombination factor protein RarA; Reviewed
Pssm-ID: 237355 [Multi-domain] Cd Length: 413 Bit Score: 57.40 E-value: 2.95e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 570 DKYKPTSLKNIIGQQ---GdqscANKLLRwlrnwhksspeekkHAAKFGKVASkddgssfkaALLSGPPGVGKTTTASLV 646
Cdd:PRK13342 4 ERMRPKTLDEVVGQEhllG----PGKPLR--------------RMIEAGRLSS---------MILWGPPGTGKTTLARII 56
|
90 100 110
....*....|....*....|....*....|....
gi 189339249 647 CQELGYSYVELNASDTrSKNSLKAIVAESLNNTS 680
Cdd:PRK13342 57 AGATDAPFEALSAVTS-GVKDLREVIEEARQRRS 89
|
|
| PRK06195 |
PRK06195 |
DNA polymerase III subunit epsilon; Validated |
349-475 |
6.00e-08 |
|
DNA polymerase III subunit epsilon; Validated
Pssm-ID: 235735 [Multi-domain] Cd Length: 309 Bit Score: 55.94 E-value: 6.00e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 349 PRKTKGSPTKRESvsPEDSEKKRtnyqayrsylnregpkalgsKEIPKGAENCLEGLTFVITGVLESIEREEAKSLIERY 428
Cdd:PRK06195 190 PSSRKGRILKRSN--RQAPRKKK--------------------KIIESFGFTAFKEEVVVFTGGLASMTRDEAMILVRRL 247
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 429 GGKVTGNVSKKTSYLVMG--------RDSGQSKSDKAAAL-----GTKILDEDGLLDLIR 475
Cdd:PRK06195 248 GGTVGSSVTKKTTYLVTNtkdiedlnREEMSNKLKKAIDLkkkgqNIKFLNEEEFLQKCK 307
|
|
| 44 |
PHA02544 |
clamp loader, small subunit; Provisional |
566-744 |
3.33e-07 |
|
clamp loader, small subunit; Provisional
Pssm-ID: 222866 [Multi-domain] Cd Length: 316 Bit Score: 53.46 E-value: 3.33e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 566 LLWVDKYKPTSLKNIIGQQGDQscankllrwlrnwhksspeekkhaAKFGKVASKddGSSFKAALLSGPPGVGKTTTASL 645
Cdd:PHA02544 9 FMWEQKYRPSTIDECILPAADK------------------------ETFKSIVKK--GRIPNMLLHSPSPGTGKTTVAKA 62
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 646 VCQELGYSYVELNASDTR---SKNSLKAivaeslnntsikgfYTSGAspSVSARH-ALIMDEVD--GMAGNED--RGGIQ 717
Cdd:PHA02544 63 LCNEVGAEVLFVNGSDCRidfVRNRLTR--------------FASTV--SLTGGGkVIIIDEFDrlGLADAQRhlRSFME 126
|
170 180
....*....|....*....|....*....
gi 189339249 718 ELiglikHTKIPIICMCNDRN--HPKIRS 744
Cdd:PHA02544 127 AY-----SKNCSFIITANNKNgiIEPLRS 150
|
|
| BRCT_PARP1 |
cd17747 |
BRCT domain of poly [ADP-ribose] polymerase 1 (PARP-1) and similar proteins; PARP-1 (EC 2.4.2. ... |
402-474 |
3.64e-07 |
|
BRCT domain of poly [ADP-ribose] polymerase 1 (PARP-1) and similar proteins; PARP-1 (EC 2.4.2.30), also termed ADP-ribosyltransferase diphtheria toxin-like 1 (ARTD1), or NAD(+) ADP-ribosyltransferase 1 (ADPRT 1), or poly[ADP-ribose] synthase 1, is involved in the base excision repair (BER) pathway, by catalyzing the poly(ADP-ribosyl)ation of a limited number of acceptor proteins involved in chromatin architecture and in DNA metabolism.
Pssm-ID: 349378 [Multi-domain] Cd Length: 76 Bit Score: 48.68 E-value: 3.64e-07
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 189339249 402 LEGLTFVITGVLeSIEREEAKSLIERYGGKVTGNVSKKTSYLV---MGRDSGQSKSDKAAALGTKILDEDGLLDLI 474
Cdd:cd17747 1 LTGMKFALIGKL-SKSKDELKKLIEKLGGKVASKVTKKVTLCIstkAEVEKMSKKMKEAKEAGVPVVSEDFLEDCI 75
|
|
| HolB |
COG0470 |
DNA polymerase III, delta prime subunit [Replication, recombination and repair]; |
628-803 |
6.16e-07 |
|
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
Pssm-ID: 440238 [Multi-domain] Cd Length: 289 Bit Score: 52.28 E-value: 6.16e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 628 AALLSGPPGVGKTTTA-----SLVCQELGYS------------------YVELNA---SDTRSKNSLKAIVaESLNNTSI 681
Cdd:COG0470 20 ALLLHGPPGIGKTTLAlalarDLLCENPEGGkacgqchsrlmaagnhpdLLELNPeekSDQIGIDQIRELG-EFLSLTPL 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 682 KGfytsgaspsvsARHALIMDEVDGMAGNEDRGGIQELIGLIKHTkiPIICMCNDRNH--PKIRSLvhyCFDLRFQRPRV 759
Cdd:COG0470 99 EG-----------GRKVVIIDEADAMNEAAANALLKTLEEPPKNT--PFILIANDPSRllPTIRSR---CQVIRFRPPSE 162
|
170 180 190 200
....*....|....*....|....*....|....*....|....
gi 189339249 760 EQIKSAMlsiafkEGLKIPPPAMNEIILGANQDVRQVLHNLSMW 803
Cdd:COG0470 163 EEALAWL------REEGVDEDALEAILRLAGGDPRAAINLLQAL 200
|
|
| SpoVK |
COG0464 |
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ... |
627-715 |
6.64e-07 |
|
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: 52.99 E-value: 6.64e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 627 KAALLSGPPGVGKTTTASLVCQELGYSYVELNASDTRSK------NSLKAIVAESLnntsikgfytsGASPSVsarhaLI 700
Cdd:COG0464 192 RGLLLYGPPGTGKTLLARALAGELGLPLIEVDLSDLVSKyvgeteKNLREVFDKAR-----------GLAPCV-----LF 255
|
90
....*....|....*
gi 189339249 701 MDEVDGMAGNEDRGG 715
Cdd:COG0464 256 IDEADALAGKRGEVG 270
|
|
| RarA |
COG2256 |
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ... |
574-674 |
4.69e-06 |
|
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, recombination and repair];
Pssm-ID: 441857 [Multi-domain] Cd Length: 439 Bit Score: 50.44 E-value: 4.69e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 574 PTSLKNIIGQQgdqscanKLL---RWLRNWHKSspeekkhaakfGKVASkddgssfkaALLSGPPGVGKTTTASLVCQEL 650
Cdd:COG2256 21 PRTLDEVVGQE-------HLLgpgKPLRRAIEA-----------GRLSS---------MILWGPPGTGKTTLARLIANAT 73
|
90 100
....*....|....*....|....
gi 189339249 651 GYSYVELNASDTrSKNSLKAIVAE 674
Cdd:COG2256 74 DAEFVALSAVTS-GVKDIREVIEE 96
|
|
| RecA-like_protease |
cd19481 |
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ... |
627-735 |
6.75e-06 |
|
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Pssm-ID: 410889 [Multi-domain] Cd Length: 158 Bit Score: 47.28 E-value: 6.75e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 627 KAALLSGPPGVGKTTTASLVCQELGYSYVELNASDTRSKNS------LKAI--VAESLnntsikgfytsgaSPSVsarha 698
Cdd:cd19481 27 KGILLYGPPGTGKTLLAKALAGELGLPLIVVKLSSLLSKYVgeseknLRKIfeRARRL-------------APCI----- 88
|
90 100 110 120
....*....|....*....|....*....|....*....|....*....
gi 189339249 699 LIMDEVDGMAGNEDRGG------------IQELIGLIKHTKIPIICMCN 735
Cdd:cd19481 89 LFIDEIDAIGRKRDSSGesgelrrvlnqlLTELDGVNSRSKVLVIAATN 137
|
|
| BRCT_TopBP1_rpt2_like |
cd17731 |
second BRCT domain of DNA topoisomerase 2-binding protein 1 (TopBP1) and similar proteins; ... |
402-475 |
1.11e-05 |
|
second BRCT domain of DNA topoisomerase 2-binding protein 1 (TopBP1) and similar proteins; TopBP1, also termed DNA topoisomerase II-beta-binding protein 1, or DNA topoisomerase II-binding protein 1, functions in DNA replication and damage response. It binds double-stranded DNA breaks and nicks as well as single-stranded DNA. TopBP1 contains six copies of BRCT domain. The family corresponds to the second BRCT domain.
Pssm-ID: 349363 [Multi-domain] Cd Length: 77 Bit Score: 44.45 E-value: 1.11e-05
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 189339249 402 LEGLTFVITGvLESIEREEAKSLIERYGGKVTGNVSKKTSYLVMGRDSGQsKSDKAAALGT-KILDEDGLLDLIR 475
Cdd:cd17731 3 FKGLVICVTG-FDSEERKEIQQLVEQNGGSYSPDLSKNCTHLIAGSPSGQ-KYEFARKWNSiHIVTPEWLYDSIE 75
|
|
| PTZ00121 |
PTZ00121 |
MAEBL; Provisional |
19-564 |
4.42e-05 |
|
MAEBL; Provisional
Pssm-ID: 173412 [Multi-domain] Cd Length: 2084 Bit Score: 47.83 E-value: 4.42e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 19 ETVKKNEKTKPSEGTVKGKQGVKEAkvnnpckEDASRPKQHNKKKRIIYDSDSESEETVQVKNAKKKSEKLPV-SCKPGK 97
Cdd:PTZ00121 1215 EEARKAEDAKKAEAVKKAEEAKKDA-------EEAKKAEEERNNEEIRKFEEARMAHFARRQAAIKAEEARKAdELKKAE 1287
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 98 ISRKDPVTYISETDEDDDFLCKKAASKSKengvstnsylgASNVKKNEENTKTKSKPLSPiKLTPTSVLDYFGTESVQRS 177
Cdd:PTZ00121 1288 EKKKADEAKKAEEKKKADEAKKKAEEAKK-----------ADEAKKKAEEAKKKADAAKK-KAEEAKKAAEAAKAEAEAA 1355
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 178 GKKMVASKKKESS---QTPDDSRLNDEAIAKQLQLDEDAELERQLHEDEEFARTLALLDEEPK-TKKARKDSEEGESfsp 253
Cdd:PTZ00121 1356 ADEAEAAEEKAEAaekKKEEAKKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKkADEAKKKAEEKKK--- 1432
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 254 aKAELSKAAKQKSPANEhfsiGRKTYSPAKygkgRGSEGTKQPCRSAHQKEACSSLKASSKSALMKAQEENSYKETELLA 333
Cdd:PTZ00121 1433 -ADEAKKKAEEAKKADE----AKKKAEEAK----KAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAK 1503
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 334 AKREsaiepkgEKTTPRKTKGSPTKRESVSPEDSEKKRTNYQAYRSYLNREGPKALGSKEIPKGAEnclegltfviTGVL 413
Cdd:PTZ00121 1504 KAAE-------AKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKAEE----------KKKA 1566
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 414 ESIEREEAKSLIERYGGKVTGNVSKKTSYLVMgRDSGQSKSDKAAALgTKILDEDGLLDLIRTMPGKKSKYEIAAEAEmK 493
Cdd:PTZ00121 1567 EEAKKAEEDKNMALRKAEEAKKAEEARIEEVM-KLYEEEKKMKAEEA-KKAEEAKIKAEELKKAEEEKKKVEQLKKKE-A 1643
|
490 500 510 520 530 540 550
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 189339249 494 KEKSKLERTPQKNDQGKRKLSPTKRELEPKKSKLTPLKHSPRKAVKEEERVCPRGLDAKEPHGSHSASREE 564
Cdd:PTZ00121 1644 EEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEE 1714
|
|
| COG1223 |
COG1223 |
Predicted ATPase, AAA+ superfamily [General function prediction only]; |
577-660 |
1.14e-04 |
|
Predicted ATPase, AAA+ superfamily [General function prediction only];
Pssm-ID: 440836 [Multi-domain] Cd Length: 246 Bit Score: 44.87 E-value: 1.14e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 577 LKNIIGQQgdqSCANKLLRWLRNWHKSspeekKHAAKFGKVASKDdgssfkaALLSGPPGVGKTTTASLVCQELGYSYVE 656
Cdd:COG1223 1 LDDVVGQE---EAKKKLKLIIKELRRR-----ENLRKFGLWPPRK-------ILFYGPPGTGKTMLAEALAGELKLPLLT 65
|
....
gi 189339249 657 LNAS 660
Cdd:COG1223 66 VRLD 69
|
|
| rad24 |
TIGR00602 |
checkpoint protein rad24; All proteins in this family for which functions are known are ... |
531-656 |
1.67e-04 |
|
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: 45.72 E-value: 1.67e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 531 KHSPRKAVKEEERvcpRGLDAKEPHGSHSASREEC--LLWVDKYKPTSLKNIIgqqgdqscankllrwlrnWHKSSPEEK 608
Cdd:TIGR00602 38 KNSPSTDIHARKR---GFLSLEQDTGLELSSENLDgnEPWVEKYKPETQHELA------------------VHKKKIEEV 96
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|
gi 189339249 609 KHA--AKFGKVASKddgssfKAALLSGPPGVGKTTTASLVCQELGYSYVE 656
Cdd:TIGR00602 97 ETWlkAQVLENAPK------RILLITGPSGCGKSTTIKILSKELGIQVQE 140
|
|
| PTZ00121 |
PTZ00121 |
MAEBL; Provisional |
14-371 |
2.18e-04 |
|
MAEBL; Provisional
Pssm-ID: 173412 [Multi-domain] Cd Length: 2084 Bit Score: 45.52 E-value: 2.18e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 14 KKPVNETVKKNEKTKPSEgtvKGKQGVKEAKVNNPCKEDASRPKQHNKKKRIIYDSDSESEETVQVKNAKKKSEKLPvsc 93
Cdd:PTZ00121 1443 AKKADEAKKKAEEAKKAE---EAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAK--- 1516
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 94 KPGKISRKDPVTYISETDEDDDFlcKKAASKSKENGVSTnsylgASNVKKNEENTKTKskplspikltptsvldyfgtES 173
Cdd:PTZ00121 1517 KAEEAKKADEAKKAEEAKKADEA--KKAEEKKKADELKK-----AEELKKAEEKKKAE--------------------EA 1569
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 174 VQRSGKKMVASKKKESSQTPDDSRLNDEAIAKQLQLDEDAELERQLHEDEEFARTLALLDEEPKTKKARKDSEEGESfsp 253
Cdd:PTZ00121 1570 KKAEEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEK--- 1646
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 254 AKAELSKAAKQKSPANEHFSIGRKTYSPAKYGKGRGSEGTKQPCRSAHQKEAcssLKASSKSALMKAQEENSYKETELLA 333
Cdd:PTZ00121 1647 KKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEA---EEAKKAEELKKKEAEEKKKAEELKK 1723
|
330 340 350
....*....|....*....|....*....|....*...
gi 189339249 334 AKRESAIEPKGEKttpRKTKGSPTKRESVSPEDSEKKR 371
Cdd:PTZ00121 1724 AEEENKIKAEEAK---KEAEEDKKKAEEAKKDEEEKKK 1758
|
|
| PRK14970 |
PRK14970 |
DNA polymerase III subunits gamma and tau; Provisional |
571-815 |
3.96e-04 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 184934 [Multi-domain] Cd Length: 367 Bit Score: 44.09 E-value: 3.96e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 571 KYKPTSLKNIIGQQgdqSCANKLLRWLRNWHKSSpeekkhaakfgkvaskddgssfkAALLSGPPGVGKTTTASLVCQEL 650
Cdd:PRK14970 10 KYRPQTFDDVVGQS---HITNTLLNAIENNHLAQ-----------------------ALLFCGPRGVGKTTCARILARKI 63
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 651 ---GYSYVELNAS------DTRSKNSLkaivaESLNNTSIKGFYtsgaSPSVSARHALIMDEVDGMAGNEDRGGIQELIG 721
Cdd:PRK14970 64 nqpGYDDPNEDFSfnifelDAASNNSV-----DDIRNLIDQVRI----PPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEE 134
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 722 LIKHTkipIICMCNDRNHPKIRSLVHYCFDLRFQRPRVEQIKSAMLSIAFKEGLKIPPPAMNEIIL---GANQDVRQVLH 798
Cdd:PRK14970 135 PPAHA---IFILATTEKHKIIPTILSRCQIFDFKRITIKDIKEHLAGIAVKEGIKFEDDALHIIAQkadGALRDALSIFD 211
|
250
....*....|....*..
gi 189339249 799 NLSMWCaqSKVLTYDQA 815
Cdd:PRK14970 212 RVVTFC--GKNITRQAV 226
|
|
| PTZ00121 |
PTZ00121 |
MAEBL; Provisional |
25-616 |
4.17e-04 |
|
MAEBL; Provisional
Pssm-ID: 173412 [Multi-domain] Cd Length: 2084 Bit Score: 44.75 E-value: 4.17e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 25 EKTKPSEGTVKGKQGVKEAKVNNPCKEDASRPKQHNKKKRiiyDSDSESEETVQVKNAKKKSE-KLPVSCKPGKISRK-D 102
Cdd:PTZ00121 1085 EDNRADEATEEAFGKAEEAKKTETGKAEEARKAEEAKKKA---EDARKAEEARKAEDARKAEEaRKAEDAKRVEIARKaE 1161
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 103 PVTYISETDEDDDFLCKKAASKSKEngvstnsYLGASNVKKNEENTKTKSKPLSPIKLTPTSVLDYFGTESVQRSGKKMV 182
Cdd:PTZ00121 1162 DARKAEEARKAEDAKKAEAARKAEE-------VRKAEELRKAEDARKAEAARKAEEERKAEEARKAEDAKKAEAVKKAEE 1234
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 183 ASKKKESSQTPDDSRlNDEAIAKQLQLDEDAELERQLHEDEEFARTlalLDEEPKTKKARKDSEEGESFSPAKA-ELSKA 261
Cdd:PTZ00121 1235 AKKDAEEAKKAEEER-NNEEIRKFEEARMAHFARRQAAIKAEEARK---ADELKKAEEKKKADEAKKAEEKKKAdEAKKK 1310
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 262 AKQKSPANEHFSIGRKTYSPAKYGKGRGSEgTKQPCRSAHQKEACSSLKASSKSALMKAQEENSYKETELLAAKRESAIE 341
Cdd:PTZ00121 1311 AEEAKKADEAKKKAEEAKKKADAAKKKAEE-AKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKKKADAAKKKAEE 1389
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 342 PKGEKTTPRKTKGSPTKRESVSPEDSEKKRTNYQAYRSYLNREGPKALGSKEIPKGAENCLEgltfvitgvlESIEREEA 421
Cdd:PTZ00121 1390 KKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAKK----------KAEEAKKA 1459
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 422 KSLIERYGGKVTGNVSKKTSylvmgrdsgqSKSDKAAALGTKILDEDGLLDLIRTMPGKKSKYEIAAEAEMKKEKSKLER 501
Cdd:PTZ00121 1460 EEAKKKAEEAKKADEAKKKA----------EEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKK 1529
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 502 TPQKNDQGK-RKLSPTKRELEPKKSKLTPLKHSPRKA---VKEEERVCPRGLDAKEPHGSHSASREECLLWVDKYKPTSL 577
Cdd:PTZ00121 1530 AEEAKKADEaKKAEEKKKADELKKAEELKKAEEKKKAeeaKKAEEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKA 1609
|
570 580 590 600
....*....|....*....|....*....|....*....|....*
gi 189339249 578 KNIIGQQGDQSCANKL------LRWLRNWHKSSPEEKKHAAKFGK 616
Cdd:PTZ00121 1610 EEAKKAEEAKIKAEELkkaeeeKKKVEQLKKKEAEEKKKAEELKK 1654
|
|
| PRK06063 |
PRK06063 |
DEDDh family exonuclease; |
415-479 |
4.44e-04 |
|
DEDDh family exonuclease;
Pssm-ID: 180377 [Multi-domain] Cd Length: 313 Bit Score: 43.54 E-value: 4.44e-04
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 189339249 415 SIEREEaksLIERY---GGKVTGNVSKKTSYLVMGR-DSGQSKSDKAAALGTKILDEDGLLDLIRTMPG 479
Cdd:PRK06063 245 SRTHEE---LVERIlhaGLAYSDSVDRDTSLVVCNDpAPEQGKGYHARQLGVPVLDEAAFLELLRAVVG 310
|
|
| ruvB |
TIGR00635 |
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ... |
618-651 |
4.48e-04 |
|
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 129721 [Multi-domain] Cd Length: 305 Bit Score: 43.83 E-value: 4.48e-04
10 20 30
....*....|....*....|....*....|....
gi 189339249 618 ASKDDGSSFKAALLSGPPGVGKTTTASLVCQELG 651
Cdd:TIGR00635 22 AAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMG 55
|
|
| Fap7 |
COG1936 |
Broad-specificity NMP kinase [Nucleotide transport and metabolism]; |
630-658 |
1.29e-03 |
|
Broad-specificity NMP kinase [Nucleotide transport and metabolism];
Pssm-ID: 441539 [Multi-domain] Cd Length: 173 Bit Score: 40.95 E-value: 1.29e-03
10 20
....*....|....*....|....*....
gi 189339249 630 LLSGPPGVGKTTTASLVCQELGYSYVELN 658
Cdd:COG1936 4 AITGTPGTGKTTVAKLLAERLGLEVIHLN 32
|
|
| CMPK |
cd02020 |
Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine ... |
631-655 |
1.51e-03 |
|
Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Pssm-ID: 238978 [Multi-domain] Cd Length: 147 Bit Score: 40.16 E-value: 1.51e-03
10 20
....*....|....*....|....*
gi 189339249 631 LSGPPGVGKTTTASLVCQELGYSYV 655
Cdd:cd02020 4 IDGPAGSGKSTVAKLLAKKLGLPYL 28
|
|
| Rad17 |
pfam03215 |
Rad17 P-loop domain; |
567-664 |
1.71e-03 |
|
Rad17 P-loop domain;
Pssm-ID: 367398 [Multi-domain] Cd Length: 186 Bit Score: 40.71 E-value: 1.71e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 567 LWVDKYKPTSLKNIIgqqgdqscankllrwlrnWHKSSPEEKKHAAKFGKVASKDDgssfKAALLSGPPGVGKTTTASLV 646
Cdd:pfam03215 8 QWYEKYKPNCLEQLA------------------VHKRKIKDVQEWLDAMFLENAKH----RILLISGPSGCGKSTVIKEL 65
|
90
....*....|....*....
gi 189339249 647 CQELGYSYVE-LNASDTRS 664
Cdd:pfam03215 66 SKELGPKYREwSNPTSFRS 84
|
|
| CDC6 |
COG1474 |
Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair]; |
629-774 |
2.04e-03 |
|
Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair];
Pssm-ID: 441083 [Multi-domain] Cd Length: 389 Bit Score: 41.76 E-value: 2.04e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 629 ALLSGPPGVGKTTTASLVCQELGY---------SYVELNASDTRSKNSLKAIVAESLNNTsiKGFYTSGASPSV------ 693
Cdd:COG1474 54 VLIYGPTGTGKTAVAKYVLEELEEeaeergvdvRVVYVNCRQASTRYRVLSRILEELGSG--EDIPSTGLSTDElfdrly 131
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 694 ------SARHALIMDEVDGMAGNEDRGGIQELIGL---IKHTKIPIICMCND---RNH--PKIRSlVHYCFDLRFQRPRV 759
Cdd:COG1474 132 ealderDGVLVVVLDEIDYLVDDEGDDLLYQLLRAneeLEGARVGVIGISNDlefLENldPRVKS-SLGEEEIVFPPYDA 210
|
170
....*....|....*...
gi 189339249 760 EQIKSAML---SIAFKEG 774
Cdd:COG1474 211 DELRDILEdraELAFYDG 228
|
|
| RuvB_N |
pfam05496 |
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ... |
630-651 |
2.09e-03 |
|
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: 40.18 E-value: 2.09e-03
|
| RPT1 |
COG1222 |
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ... |
627-665 |
3.48e-03 |
|
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];
Pssm-ID: 440835 [Multi-domain] Cd Length: 326 Bit Score: 40.76 E-value: 3.48e-03
10 20 30
....*....|....*....|....*....|....*....
gi 189339249 627 KAALLSGPPGVGKTTTASLVCQELGYSYVELNASDTRSK 665
Cdd:COG1222 113 KGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRGSELVSK 151
|
|
| RuvB |
COG2255 |
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, ... |
630-651 |
3.83e-03 |
|
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, recombination and repair];
Pssm-ID: 441856 [Multi-domain] Cd Length: 337 Bit Score: 40.83 E-value: 3.83e-03
|
| PTZ00121 |
PTZ00121 |
MAEBL; Provisional |
19-544 |
4.86e-03 |
|
MAEBL; Provisional
Pssm-ID: 173412 [Multi-domain] Cd Length: 2084 Bit Score: 41.28 E-value: 4.86e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 19 ETVKKNEKTKPSEGTVKGKQGVKEAKVNnpcKEDASRPKQHNKKKRII--YDSDSESEETVQVKNAKKKSEKlpvsCKPG 96
Cdd:PTZ00121 1173 EDAKKAEAARKAEEVRKAEELRKAEDAR---KAEAARKAEEERKAEEArkAEDAKKAEAVKKAEEAKKDAEE----AKKA 1245
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 97 KISRKDPVTYISETDEDDDFLCKKAASKSKENgvstnsyLGASNVKKNEENTKTkskplspikltptsvldyfgtESVQR 176
Cdd:PTZ00121 1246 EEERNNEEIRKFEEARMAHFARRQAAIKAEEA-------RKADELKKAEEKKKA---------------------DEAKK 1297
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 177 SGKKmvaSKKKESSQTPDDSRLNDEAIAKQLQLDEDAELERQLHEDEEFARTLALLDEEPKTKKARKDSEEGESFSPAKA 256
Cdd:PTZ00121 1298 AEEK---KKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKE 1374
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 257 ELSKAAKQKSPANEHFSIGRKTYSPAKYGKGRGSEGTKQPCRSAHQKEACSSLKASSKSALMKAQEENSYKETEL--LAA 334
Cdd:PTZ00121 1375 EAKKKADAAKKKAEEKKKADEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEEKKKADEAKKKAEEAKKADEAkkKAE 1454
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 335 KRESAIEPKGEKTTPRKTKGSPTKRESVSPEDSEKKRTNYQAYRSYLNREGPKALGSKEIPKGAEnclegltfvitgvlE 414
Cdd:PTZ00121 1455 EAKKAEEAKKKAEEAKKADEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAE--------------E 1520
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 415 SIEREEAKSLIE-RYGGKVTGNVSKKTSYLVMGRDSGQSKSDKAAALGTKILDEDGLLDLIRTMPGKKSKYEIAAEAEMK 493
Cdd:PTZ00121 1521 AKKADEAKKAEEaKKADEAKKAEEKKKADELKKAEELKKAEEKKKAEEAKKAEEDKNMALRKAEEAKKAEEARIEEVMKL 1600
|
490 500 510 520 530
....*....|....*....|....*....|....*....|....*....|...
gi 189339249 494 KEKSKLERTPQ--KNDQGKRKLSPTKRELEPKKsKLTPLKHSPRKAVKEEERV 544
Cdd:PTZ00121 1601 YEEEKKMKAEEakKAEEAKIKAEELKKAEEEKK-KVEQLKKKEAEEKKKAEEL 1652
|
|
| ruvB |
PRK00080 |
Holliday junction branch migration DNA helicase RuvB; |
630-651 |
4.86e-03 |
|
Holliday junction branch migration DNA helicase RuvB;
Pssm-ID: 234619 [Multi-domain] Cd Length: 328 Bit Score: 40.50 E-value: 4.86e-03
|
| AAA_17 |
pfam13207 |
AAA domain; |
632-661 |
5.00e-03 |
|
AAA domain;
Pssm-ID: 463810 [Multi-domain] Cd Length: 136 Bit Score: 38.37 E-value: 5.00e-03
10 20 30
....*....|....*....|....*....|
gi 189339249 632 SGPPGVGKTTTASLVCQELGYSYVelNASD 661
Cdd:pfam13207 1 TGVPGSGKTTQLKKLAEKLGFPHI--SAGD 28
|
|
| RecA-like_CDC48_NLV2_r1-like |
cd19503 |
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ... |
627-708 |
5.11e-03 |
|
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. This subfamily also includes the first of the two ATPase domains of NVL (nuclear VCP-like protein) 2, an isoform of NVL mainly present in the nucleolus, which is involved in ribosome biogenesis, in telomerase assembly and the regulation of telomerase activity, and in pre-rRNA processing. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Pssm-ID: 410911 [Multi-domain] Cd Length: 165 Bit Score: 39.20 E-value: 5.11e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 627 KAALLSGPPGVGKTTTASLVCQELGYSYVELNASDTRSK------NSLKAIVAESlnntsikgfytSGASPSVsarhaLI 700
Cdd:cd19503 35 RGVLLHGPPGTGKTLLARAVANEAGANFLSISGPSIVSKylgeseKNLREIFEEA-----------RSHAPSI-----IF 98
|
....*...
gi 189339249 701 MDEVDGMA 708
Cdd:cd19503 99 IDEIDALA 106
|
|
| RecA-like_CDC48_r2-like |
cd19511 |
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ... |
627-718 |
5.61e-03 |
|
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase domains; This subfamily includes the second of two ATPase domains of the molecular chaperone CDC48 in yeast and p97 or VCP in metazoans, Peroxisomal biogenesis factor 1 (PEX1) and -6 (PEX6), Valosin-containing protein-like ATPase (VAT), and nuclear VCP-like protein (NVL). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Pssm-ID: 410919 [Multi-domain] Cd Length: 159 Bit Score: 38.80 E-value: 5.61e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339249 627 KAALLSGPPGVGKTTTASLVCQELGYSYVELNASDTRSKnslkaIVAESLNNTSiKGFYTS-GASPSVsarhaLIMDEVD 705
Cdd:cd19511 28 KGVLLYGPPGCGKTLLAKALASEAGLNFISVKGPELFSK-----YVGESERAVR-EIFQKArQAAPCI-----IFFDEID 96
|
90
....*....|....*.
gi 189339249 706 GMA---GNEDRGGIQE 718
Cdd:cd19511 97 SLAprrGQSDSSGVTD 112
|
|
| PRK14964 |
PRK14964 |
DNA polymerase III subunits gamma and tau; Provisional |
571-646 |
7.73e-03 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 237870 [Multi-domain] Cd Length: 491 Bit Score: 40.15 E-value: 7.73e-03
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 189339249 571 KYKPTSLKNIIGQqgdqscaNKLLRWLRNwhksspeekkhAAKFGKVASkddgssfkAALLSGPPGVGKTTTASLV 646
Cdd:PRK14964 6 KYRPSSFKDLVGQ-------DVLVRILRN-----------AFTLNKIPQ--------SILLVGASGVGKTTCARII 55
|
|
| |
