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Conserved domains on  [gi|2462537585|ref|XP_054230750|]
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replication factor C subunit 3 isoform X1 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
rfc super family cl35099
replication factor C small subunit; Reviewed
 3-207 1.34e-44

replication factor C small subunit; Reviewed


The actual alignment was detected with superfamily member PRK00440:

Pssm-ID: 234763 [Multi-domain]  Cd Length: 319  Bit Score: 155.42  E-value: 1.34e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   3 LWVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVYGPSGAGKKTRIMCILRELYGvgvEKLRiehqtittpskkki 82
Cdd:PRK00440    6 IWVEKYRPRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYG---EDWR-------------- 68

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  83 eistiasNYHLEVNPSDAGNSDrvVIQEMLKTVAQSQQLETnsqRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLI 162
Cdd:PRK00440   69 -------ENFLELNASDERGID--VIRNKIKEFARTAPVGG---APFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFI 136

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*
gi 2462537585 163 LCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNL 207
Cdd:PRK00440  137 LSCNYSSKIIDPIQSRCAVFRFSPLKKEAVAERLRYIAENEGIEI 181
HLD_clamp super family cl38921
helical lid domain of clamp loader-like AAA+ proteins; Clamp loader complexes are multisubunit ...
 187-252 2.21e-04

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.


The actual alignment was detected with superfamily member cd18140:

Pssm-ID: 365797 [Multi-domain]  Cd Length: 63  Bit Score: 38.66  E-value: 2.21e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2462537585 187 PSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCEACRVQqypftaDQEIPETDWE 252
Cdd:cd18140     1 LSKEQIVKRLREICKKEGVKIDEEALEAIAEKSEGDMRKAINDLQAAAAG------GGVITEEDVY 60
 
Name Accession Description Interval E-value
rfc PRK00440
replication factor C small subunit; Reviewed
 3-207 1.34e-44

replication factor C small subunit; Reviewed


Pssm-ID: 234763 [Multi-domain]  Cd Length: 319  Bit Score: 155.42  E-value: 1.34e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   3 LWVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVYGPSGAGKKTRIMCILRELYGvgvEKLRiehqtittpskkki 82
Cdd:PRK00440    6 IWVEKYRPRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYG---EDWR-------------- 68

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  83 eistiasNYHLEVNPSDAGNSDrvVIQEMLKTVAQSQQLETnsqRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLI 162
Cdd:PRK00440   69 -------ENFLELNASDERGID--VIRNKIKEFARTAPVGG---APFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFI 136

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*
gi 2462537585 163 LCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNL 207
Cdd:PRK00440  137 LSCNYSSKIIDPIQSRCAVFRFSPLKKEAVAERLRYIAENEGIEI 181
HolB COG0470
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
19-294 1.15e-31

DNA polymerase III, delta prime subunit [Replication, recombination and repair];


Pssm-ID: 440238 [Multi-domain]  Cd Length: 289  Bit Score: 120.46  E-value: 1.15e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  19 HKEQAAQLRNLVQCGDFPH-LLVYGPSGAGKKTRIMCILRELYGvgveklrieHQTITTPSKKKIEISTIASNYH---LE 94
Cdd:COG0470     1 QEEAWEQLLAAAESGRLPHaLLLHGPPGIGKTTLALALARDLLC---------ENPEGGKACGQCHSRLMAAGNHpdlLE 71

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  95 VNPSDAGNSDRV-VIQEMLKTVAQSqqletnSQRD-FKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVI 172
Cdd:COG0470    72 LNPEEKSDQIGIdQIRELGEFLSLT------PLEGgRKVVIIDEADAMNEAAANALLKTLEEPPKNTPFILIANDPSRLL 145

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585 173 PPIRSRCLAVRVPAPSIEDICHVLstvcKKEGlnLPSQLAHRLAEKSCRNLRKALLMCEAcrvqqypFTADQEIPETDWE 252
Cdd:COG0470   146 PTIRSRCQVIRFRPPSEEEALAWL----REEG--VDEDALEAILRLAGGDPRAAINLLQA-------LAGRKELLEDLAA 212

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*.
gi 2462537585 253 VYLR----ETANAIVSQQTPQRLLEVRGRLYELLTHCIPPEIIMKM 294
Cdd:COG0470   213 LLSRdralELLDALLKAEALELLDWLLKWLLDNLPLEYAGEDLARA 258
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 21-179 4.85e-10

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: 57.54  E-value: 4.85e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  21 EQAAQLRNLVQCGDFPHLLVYGPSGAGKKTRIMCILRELYGVGVEklriehqtittpskkkieistiasnyHLEVNPSDA 100
Cdd:cd00009     5 EAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAP--------------------------FLYLNASDL 58

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585 101 GNSDRVVIQEmlKTVAQSQQLETNSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMST------CRLILCCNSTS--KVI 172
Cdd:cd00009    59 LEGLVVAELF--GHFLVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLridrenVRVIGATNRPLlgDLD 136


                  ....*..
gi 2462537585 173 PPIRSRC 179
Cdd:cd00009   137 RALYDRL 143
DNA_pol3_delta2 pfam13177
DNA polymerase III, delta subunit; DNA polymerase III, delta subunit (EC 2.7.7.7) is required ...
 18-188 6.03e-07

DNA polymerase III, delta subunit; DNA polymerase III, delta subunit (EC 2.7.7.7) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalyzed reaction. The delta subunit is also known as HolA.


Pssm-ID: 433013 [Multi-domain]  Cd Length: 161  Bit Score: 48.75  E-value: 6.03e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  18 YHKEQAAQLRNLVQCGDFPH-LLVYGPSGAGKKTRIMCILRELYGvgvEKLRIEHQTITTPSKKKIEiSTIASNYHLeVN 96
Cdd:pfam13177   1 GQPEAIQLLQNSLENGRLSHaYLFSGPEGVGKLELALAFAKALFC---EEPGDDLPCGQCRSCRRIE-SGNHPDLVI-IE 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  97 PSdaGNSDRV-VIQEMLKTVAQSQqLETNsqrdFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPI 175
Cdd:pfam13177  76 PE--GQSIKIdQIRELQKEFSKSP-YEGK----KKVYIIEDAEKMTASAANSLLKFLEEPPGNTVIILLTENPSRLLPTI 148

                         170
                  ....*....|...
gi 2462537585 176 RSRCLAVRVPAPS 188
Cdd:pfam13177 149 RSRCQIIRFKPLS 161
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 37-190 2.26e-06

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: 46.60  E-value: 2.26e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   37 HLLVYGPSGAGKKTRIMCILRELYGVGVEKLRIEHQTITTPSKKKIeistiasnyHLEVNPSDAGNSDRVVIQEMLKTVA 116
Cdd:smart00382   4 VILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQL---------LLIIVGGKKASGSGELRLRLALALA 74

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  117 QsqqletnsQRDFKVVLLTEVDKLTKDAQHALRR--------TMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAPS 188
Cdd:smart00382  75 R--------KLKPDVLILDEITSLLDAEQEALLLlleelrllLLLKSEKNLTVILTTNDEKDLGPALLRRRFDRRIVLLL 146


                   ..
gi 2462537585  189 IE 190
Cdd:smart00382 147 IL 148
HLD_clamp_RFC cd18140
helical lid domain of replication factor C subunit; Replication factor C (RFC) is five-protein ...
 187-252 2.21e-04

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: 38.66  E-value: 2.21e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2462537585 187 PSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCEACRVQqypftaDQEIPETDWE 252
Cdd:cd18140     1 LSKEQIVKRLREICKKEGVKIDEEALEAIAEKSEGDMRKAINDLQAAAAG------GGVITEEDVY 60
rad24 TIGR00602
checkpoint protein rad24; All proteins in this family for which functions are known are ...
 3-164 1.21e-03

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: 40.71  E-value: 1.21e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   3 LWVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPH-----LLVYGPSGAGKKTRIMCILRELygvgVEKLR--IEHQTIT 75
Cdd:TIGR00602  73 PWVEKYKPETQHELAVHKKKIEEVETWLKAQVLENapkriLLITGPSGCGKSTTIKILSKEL----GIQVQewSNPTLPD 148

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  76 TPSKKKIEISTIASNYHLEVnpsdagnSDRVVIQEMLKTVAQS-QQLETNSQRDFKVVLLTEVDK---LTKDAQHALRRT 151
Cdd:TIGR00602 149 FQKNDHKVTLSLESCFSNFQ-------SQIEVFSEFLLRATNKlQMLGDDLMTDKKIILVEDLPNqfyRDTRALHEILRW 221

                         170
                  ....*....|...
gi 2462537585 152 MEKYMSTCRLILC 164
Cdd:TIGR00602 222 KYVSIGRCPLVFI 234
 
Name Accession Description Interval E-value
rfc PRK00440
replication factor C small subunit; Reviewed
 3-207 1.34e-44

replication factor C small subunit; Reviewed


Pssm-ID: 234763 [Multi-domain]  Cd Length: 319  Bit Score: 155.42  E-value: 1.34e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   3 LWVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVYGPSGAGKKTRIMCILRELYGvgvEKLRiehqtittpskkki 82
Cdd:PRK00440    6 IWVEKYRPRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYG---EDWR-------------- 68

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  83 eistiasNYHLEVNPSDAGNSDrvVIQEMLKTVAQSQQLETnsqRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLI 162
Cdd:PRK00440   69 -------ENFLELNASDERGID--VIRNKIKEFARTAPVGG---APFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFI 136

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*
gi 2462537585 163 LCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNL 207
Cdd:PRK00440  137 LSCNYSSKIIDPIQSRCAVFRFSPLKKEAVAERLRYIAENEGIEI 181
PRK12402 PRK12402
replication factor C small subunit 2; Reviewed
 3-282 1.75e-44

replication factor C small subunit 2; Reviewed


Pssm-ID: 237090 [Multi-domain]  Cd Length: 337  Bit Score: 155.53  E-value: 1.75e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   3 LWVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVYGPSGAGKKTRIMCILRELYGVGVEKLRIEHQTITTPSKKKI 82
Cdd:PRK12402    4 LWTEKYRPALLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGKK 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  83 EISTIASNYHLEVNPSDAGNSDRVVIQEMLKTVAQSQQLETnsqrDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLI 162
Cdd:PRK12402   84 YLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSA----DYKTILLDNAEALREDAQQALRRIMEQYSRTCRFI 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585 163 LCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCEACRVQQYPFTa 242
Cdd:PRK12402  160 IATRQPSKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAILTLQTAALAAGEIT- 238

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|
gi 2462537585 243 DQEIPETDWEVYLRETANAIVSQQTPQRLLEVRGRLYELL 282
Cdd:PRK12402  239 MEAAYEALGDVGTDEVIESLLDAAEAGDFTDARKTLDDLL 278
PLN03025 PLN03025
replication factor C subunit; Provisional
 4-205 9.68e-33

replication factor C subunit; Provisional


Pssm-ID: 178596 [Multi-domain]  Cd Length: 319  Bit Score: 124.07  E-value: 9.68e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   4 WVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVYGPSGAGKKTRIMCILRELYGvgveklriehqtittPSKKkie 83
Cdd:PLN03025    3 WVEKYRPTKLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLG---------------PNYK--- 64

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  84 istiasNYHLEVNPSDAGNSDrvVIQEMLKTVAQSQQleTNSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLIL 163
Cdd:PLN03025   65 ------EAVLELNASDDRGID--VVRNKIKMFAQKKV--TLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFAL 134

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 2462537585 164 CCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGL 205
Cdd:PLN03025  135 ACNTSSKIIEPIQSRCAIVRFSRLSDQEILGRLMKVVEAEKV 176
HolB COG0470
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
19-294 1.15e-31

DNA polymerase III, delta prime subunit [Replication, recombination and repair];


Pssm-ID: 440238 [Multi-domain]  Cd Length: 289  Bit Score: 120.46  E-value: 1.15e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  19 HKEQAAQLRNLVQCGDFPH-LLVYGPSGAGKKTRIMCILRELYGvgveklrieHQTITTPSKKKIEISTIASNYH---LE 94
Cdd:COG0470     1 QEEAWEQLLAAAESGRLPHaLLLHGPPGIGKTTLALALARDLLC---------ENPEGGKACGQCHSRLMAAGNHpdlLE 71

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  95 VNPSDAGNSDRV-VIQEMLKTVAQSqqletnSQRD-FKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVI 172
Cdd:COG0470    72 LNPEEKSDQIGIdQIRELGEFLSLT------PLEGgRKVVIIDEADAMNEAAANALLKTLEEPPKNTPFILIANDPSRLL 145

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585 173 PPIRSRCLAVRVPAPSIEDICHVLstvcKKEGlnLPSQLAHRLAEKSCRNLRKALLMCEAcrvqqypFTADQEIPETDWE 252
Cdd:COG0470   146 PTIRSRCQVIRFRPPSEEEALAWL----REEG--VDEDALEAILRLAGGDPRAAINLLQA-------LAGRKELLEDLAA 212

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*.
gi 2462537585 253 VYLR----ETANAIVSQQTPQRLLEVRGRLYELLTHCIPPEIIMKM 294
Cdd:COG0470   213 LLSRdralELLDALLKAEALELLDWLLKWLLDNLPLEYAGEDLARA 258
PRK04132 PRK04132
replication factor C small subunit; Provisional
 93-282 1.86e-25

replication factor C small subunit; Provisional


Pssm-ID: 235223 [Multi-domain]  Cd Length: 846  Bit Score: 107.23  E-value: 1.86e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  93 LEVNPSDAGNSDrvVIQEMLKTVAQSQQLETNSqrdFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVI 172
Cdd:PRK04132  600 LELNASDERGIN--VIREKVKEFARTKPIGGAS---FKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKII 674

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585 173 PPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALlmceacRVQQYPFTADQEIpeTDWE 252
Cdd:PRK04132  675 EPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEGDMRRAI------NILQAAAALDDKI--TDEN 746

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|..
gi 2462537585 253 VYLretanaIVSQQTPQ------------RLLEVRGRLYELL 282
Cdd:PRK04132  747 VFL------VASRARPEdiremmllalkgNFLKAREKLREIL 782
44 PHA02544
clamp loader, small subunit; Provisional
 3-204 1.10e-17

clamp loader, small subunit; Provisional


Pssm-ID: 222866 [Multi-domain]  Cd Length: 316  Bit Score: 82.34  E-value: 1.10e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   3 LWVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVYGPS-GAGKKTRIMCILRElygVGVEklriehqtittpskkk 81
Cdd:PHA02544   10 MWEQKYRPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSpGTGKTTVAKALCNE---VGAE---------------- 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  82 ieistiasnyHLEVNPSDaGNSDrvVIQEMLKTVAQSQQLETNsqrdFKVVLLTEVDKL-TKDAQHALRRTMEKYMSTCR 160
Cdd:PHA02544   71 ----------VLFVNGSD-CRID--FVRNRLTRFASTVSLTGG----GKVIIIDEFDRLgLADAQRHLRSFMEAYSKNCS 133

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2462537585 161 LILCCNSTSKVIPPIRSRCLAVRVPAPSIED-------ICHVLSTVCKKEG 204
Cdd:PHA02544  134 FIITANNKNGIIEPLRSRCRVIDFGVPTKEEqiemmkqMIVRCKGILEAEG 184
DnaX COG2812
DNA polymerase III, gamma/tau subunits [Replication, recombination and repair];
19-275 9.66e-14

DNA polymerase III, gamma/tau subunits [Replication, recombination and repair];


Pssm-ID: 442061 [Multi-domain]  Cd Length: 340  Bit Score: 70.99  E-value: 9.66e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  19 HKEQAAQLRNLVQCGDFPH-LLVYGPSGAGKKT--RIM-----CilrelygvgveklriEHQTITTP-----SKKKIeis 85
Cdd:COG2812    15 QEHVVRTLKNALASGRLAHaYLFTGPRGVGKTTlaRILakalnC---------------ENGPTGEPcgeceSCRAI--- 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  86 tiASNYHLEVNPSDAGNSDRVV--IQEMLKTVAQSqqletNSQRDFKVVLLTEVDKLTKDAQHALRRTME------Kyms 157
Cdd:COG2812    77 --AAGSHPDVIEIDAEASNIGVddIRELIEKVSYA-----PVEGRYKVYIIDEAHMLTTEAFNALLKTLEeppphvV--- 146

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585 158 tcrLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMceacrvqq 237
Cdd:COG2812   147 ---FILATTEPQKLLPTILSRCQRFDFRRLPPEEIAEHLAKIAEREGIEIEPEALALIARAADGSMRDALSL-------- 215

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|
gi 2462537585 238 ypftADQEIP--ETDWEVYLRETANAIVSQQTPQRLLEVR 275
Cdd:COG2812   216 ----LDQAIAfgLLDRRELLLDLLEALLAGDVAALLALAE 251
PRK14962 PRK14962
DNA polymerase III subunits gamma and tau; Provisional
 7-231 4.77e-10

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237869 [Multi-domain]  Cd Length: 472  Bit Score: 60.55  E-value: 4.77e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVY-GPSGAGKKT--RIMcilrelygvgVEKLRIEHQTITTPSKKKIE 83
Cdd:PRK14962    7 KYRPKTFSEVVGQDHVKKLIINALKKNSISHAYIFaGPRGTGKTTvaRIL----------AKSLNCENRKGVEPCNECRA 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  84 ISTIASNYHLEVNPSDAGnSDRVV--IQEMLKTVAQsqqleTNSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRL 161
Cdd:PRK14962   77 CRSIDEGTFMDVIELDAA-SNRGIdeIRKIRDAVGY-----RPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVF 150

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585 162 ILCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCE 231
Cdd:PRK14962  151 VLATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLE 220
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 21-179 4.85e-10

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: 57.54  E-value: 4.85e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  21 EQAAQLRNLVQCGDFPHLLVYGPSGAGKKTRIMCILRELYGVGVEklriehqtittpskkkieistiasnyHLEVNPSDA 100
Cdd:cd00009     5 EAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAP--------------------------FLYLNASDL 58

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585 101 GNSDRVVIQEmlKTVAQSQQLETNSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMST------CRLILCCNSTS--KVI 172
Cdd:cd00009    59 LEGLVVAELF--GHFLVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLridrenVRVIGATNRPLlgDLD 136


                  ....*..
gi 2462537585 173 PPIRSRC 179
Cdd:cd00009   137 RALYDRL 143
PRK14961 PRK14961
DNA polymerase III subunits gamma and tau; Provisional
 7-231 2.44e-09

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184925 [Multi-domain]  Cd Length: 363  Bit Score: 57.90  E-value: 2.44e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHL-LVYGPSGAGKKTrimcILRELygvgVEKLRIEHQTITTPSKKKIEIS 85
Cdd:PRK14961    9 KWRPQYFRDIIGQKHIVTAISNGLSLGRIHHAwLLSGTRGVGKTT----IARLL----AKSLNCQNGITSNPCRKCIICK 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  86 TIASNYHLEVNPSDAgnSDRVVIQEMLKTVAQSQQLETNSQrdFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCC 165
Cdd:PRK14961   81 EIEKGLCLDLIEIDA--ASRTKVEEMREILDNIYYSPSKSR--FKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILAT 156

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2462537585 166 NSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCE 231
Cdd:PRK14961  157 TDVEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKESIDTDEYALKLIAYHAHGSMRDALNLLE 222
PRK14970 PRK14970
DNA polymerase III subunits gamma and tau; Provisional
 7-272 9.34e-09

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184934 [Multi-domain]  Cd Length: 367  Bit Score: 56.04  E-value: 9.34e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVY-GPSGAGKKTrimCIlrelygvgveklRIEHQTITTPSkkkieIS 85
Cdd:PRK14970   10 KYRPQTFDDVVGQSHITNTLLNAIENNHLAQALLFcGPRGVGKTT---CA------------RILARKINQPG-----YD 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  86 TIASNYHLEVNPSDAGNSDRVV-IQEMLKTVAQSQQLEtnsqrDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILC 164
Cdd:PRK14970   70 DPNEDFSFNIFELDAASNNSVDdIRNLIDQVRIPPQTG-----KYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILA 144

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585 165 CNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCEacRVQQYPFT--- 241
Cdd:PRK14970  145 TTEKHKIIPTILSRCQIFDFKRITIKDIKEHLAGIAVKEGIKFEDDALHIIAQKADGALRDALSIFD--RVVTFCGKnit 222

                         250       260       270
                  ....*....|....*....|....*....|....
gi 2462537585 242 ---ADQEIPETDWEVYLRETaNAIVSQQTPQRLL 272
Cdd:PRK14970  223 rqaVTENLNILDYDTYINVT-DLILENKIPELLL 255
PRK07940 PRK07940
DNA polymerase III subunit delta'; Validated
 108-216 1.15e-08

DNA polymerase III subunit delta'; Validated


Pssm-ID: 236134 [Multi-domain]  Cd Length: 394  Bit Score: 56.07  E-value: 1.15e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585 108 IQEMLKTVAQSQQLETNSQrdFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAP 187
Cdd:PRK07940   99 VDEVRELVTIAARRPSTGR--WRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIRSRCRHVALRTP 176

                          90       100
                  ....*....|....*....|....*....
gi 2462537585 188 SIEDICHVLStvckkEGLNLPSQLAHRLA 216
Cdd:PRK07940  177 SVEAVAEVLV-----RRDGVDPETARRAA 200
PRK14953 PRK14953
DNA polymerase III subunits gamma and tau; Provisional
 129-227 2.85e-07

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237867 [Multi-domain]  Cd Length: 486  Bit Score: 51.75  E-value: 2.85e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585 129 FKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLP 208
Cdd:PRK14953  120 YKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIEYE 199

                          90
                  ....*....|....*....
gi 2462537585 209 SQLAHRLAEKSCRNLRKAL 227
Cdd:PRK14953  200 EKALDLLAQASEGGMRDAA 218
PRK14957 PRK14957
DNA polymerase III subunits gamma and tau; Provisional
 7-227 3.39e-07

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184921 [Multi-domain]  Cd Length: 546  Bit Score: 51.62  E-value: 3.39e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVY-GPSGAGKKT--RIMC-ILRELYGVGVEklriehqtittPSKKKI 82
Cdd:PRK14957    9 KYRPQSFAEVAGQQHALNSLVHALETQKVHHAYLFtGTRGVGKTTlgRLLAkCLNCKTGVTAE-----------PCNKCE 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  83 EISTIASNYHLEVNPSDAgnSDRVVIQEMLKTVAQSQQLEtnSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLI 162
Cdd:PRK14957   78 NCVAINNNSFIDLIEIDA--ASRTGVEETKEILDNIQYMP--SQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFI 153

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2462537585 163 LCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKAL 227
Cdd:PRK14957  154 LATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENINSDEQSLEYIAYHAKGSLRDAL 218
PRK14971 PRK14971
DNA polymerase III subunit gamma/tau;
129-272 4.82e-07

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237874 [Multi-domain]  Cd Length: 614  Bit Score: 51.31  E-value: 4.82e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585 129 FKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLP 208
Cdd:PRK14971  122 YKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGITAE 201

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2462537585 209 SQLAHRLAEKSCRNLRKALLMCEacrvQQYPFTAD----QEIPET----DWEVYLRETaNAIVSQQTPQRLL 272
Cdd:PRK14971  202 PEALNVIAQKADGGMRDALSIFD----QVVSFTGGnityKSVIENlnilDYDYYFRLT-DALLAGKVSDSLL 268
DNA_pol3_delta2 pfam13177
DNA polymerase III, delta subunit; DNA polymerase III, delta subunit (EC 2.7.7.7) is required ...
 18-188 6.03e-07

DNA polymerase III, delta subunit; DNA polymerase III, delta subunit (EC 2.7.7.7) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalyzed reaction. The delta subunit is also known as HolA.


Pssm-ID: 433013 [Multi-domain]  Cd Length: 161  Bit Score: 48.75  E-value: 6.03e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  18 YHKEQAAQLRNLVQCGDFPH-LLVYGPSGAGKKTRIMCILRELYGvgvEKLRIEHQTITTPSKKKIEiSTIASNYHLeVN 96
Cdd:pfam13177   1 GQPEAIQLLQNSLENGRLSHaYLFSGPEGVGKLELALAFAKALFC---EEPGDDLPCGQCRSCRRIE-SGNHPDLVI-IE 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  97 PSdaGNSDRV-VIQEMLKTVAQSQqLETNsqrdFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPI 175
Cdd:pfam13177  76 PE--GQSIKIdQIRELQKEFSKSP-YEGK----KKVYIIEDAEKMTASAANSLLKFLEEPPGNTVIILLTENPSRLLPTI 148

                         170
                  ....*....|...
gi 2462537585 176 RSRCLAVRVPAPS 188
Cdd:pfam13177 149 RSRCQIIRFKPLS 161
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 37-190 2.26e-06

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: 46.60  E-value: 2.26e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   37 HLLVYGPSGAGKKTRIMCILRELYGVGVEKLRIEHQTITTPSKKKIeistiasnyHLEVNPSDAGNSDRVVIQEMLKTVA 116
Cdd:smart00382   4 VILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQL---------LLIIVGGKKASGSGELRLRLALALA 74

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  117 QsqqletnsQRDFKVVLLTEVDKLTKDAQHALRR--------TMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAPS 188
Cdd:smart00382  75 R--------KLKPDVLILDEITSLLDAEQEALLLlleelrllLLLKSEKNLTVILTTNDEKDLGPALLRRRFDRRIVLLL 146


                   ..
gi 2462537585  189 IE 190
Cdd:smart00382 147 IL 148
PRK14956 PRK14956
DNA polymerase III subunits gamma and tau; Provisional
 7-231 5.10e-06

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184920 [Multi-domain]  Cd Length: 484  Bit Score: 48.02  E-value: 5.10e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVY-GPSGAGKKTrimcILRELygvgVEKLRIEHQTITTPSKKK---I 82
Cdd:PRK14956   11 KYRPQFFRDVIHQDLAIGALQNALKSGKIGHAYIFfGPRGVGKTT----IARIL----AKRLNCENPIGNEPCNECtscL 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  83 EISTIASNYHLEVNPsdAGNSDRVVIQEMLKTVAQSQQletnsQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLI 162
Cdd:PRK14956   83 EITKGISSDVLEIDA--ASNRGIENIRELRDNVKFAPM-----GGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFI 155

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2462537585 163 LCCNSTSKVIPPIRSRC---LAVRVPAPSIEDichVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCE 231
Cdd:PRK14956  156 LATTEFHKIPETILSRCqdfIFKKVPLSVLQD---YSEKLCKIENVQYDQEGLFWIAKKGDGSVRDMLSFME 224
PRK14960 PRK14960
DNA polymerase III subunit gamma/tau;
7-227 5.66e-06

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237868 [Multi-domain]  Cd Length: 702  Bit Score: 48.12  E-value: 5.66e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVY-GPSGAGKKTrimcILRELygvgVEKLRIEHQTITTPSKKKIEIS 85
Cdd:PRK14960    8 KYRPRNFNELVGQNHVSRALSSALERGRLHHAYLFtGTRGVGKTT----IARIL----AKCLNCETGVTSTPCEVCATCK 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  86 TIASNYHLEVNPSDAGNSDRVV-IQEMLKTVAQSQqletnSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILC 164
Cdd:PRK14960   80 AVNEGRFIDLIEIDAASRTKVEdTRELLDNVPYAP-----TQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFA 154

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2462537585 165 CNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKAL 227
Cdd:PRK14960  155 TTDPQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQIAADQDAIWQIAESAQGSLRDAL 217
PRK05564 PRK05564
DNA polymerase III subunit delta'; Validated
 128-192 2.39e-05

DNA polymerase III subunit delta'; Validated


Pssm-ID: 180132 [Multi-domain]  Cd Length: 313  Bit Score: 45.41  E-value: 2.39e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2462537585 128 DFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDI 192
Cdd:PRK05564   93 DKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEEI 157
PRK14964 PRK14964
DNA polymerase III subunits gamma and tau; Provisional
 7-231 2.77e-05

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237870 [Multi-domain]  Cd Length: 491  Bit Score: 45.55  E-value: 2.77e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPH-LLVYGPSGAGKKT--RI--MCilrelygvgvekLRIEHQTITTPSKKK 81
Cdd:PRK14964    6 KYRPSSFKDLVGQDVLVRILRNAFTLNKIPQsILLVGASGVGKTTcaRIisLC------------LNCSNGPTSDPCGTC 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  82 IEISTIASNYHLEVNPSDAGNSDRV----VIQEmlktvaQSQQLETNSQrdFKVVLLTEVDKLTKDAQHALRRTMEKYMS 157
Cdd:PRK14964   74 HNCISIKNSNHPDVIEIDAASNTSVddikVILE------NSCYLPISSK--FKVYIIDEVHMLSNSAFNALLKTLEEPAP 145

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2462537585 158 TCRLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCE 231
Cdd:PRK14964  146 HVKFILATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIEHDEESLKLIAENSSGSMRNALFLLE 219
PRK05707 PRK05707
DNA polymerase III subunit delta'; Validated
 22-191 3.50e-05

DNA polymerase III subunit delta'; Validated


Pssm-ID: 180215 [Multi-domain]  Cd Length: 328  Bit Score: 45.08  E-value: 3.50e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  22 QAAQLRNLVQCGDFPH-LLVYGPSGAGKktrimcilRELYGVGVEKLRIEHQTITTP--SKKKIEISTIAS---NYHLEv 95
Cdd:PRK05707    8 QQSLWQQLAGRGRHPHaYLLHGPAGIGK--------RALAERLAAALLCEAPQGGGAcgSCKGCQLLRAGShpdNFVLE- 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  96 nPSDAGNSDRV-VIQEMLKTVAQSQQletnsQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPP 174
Cdd:PRK05707   79 -PEEADKTIKVdQVRELVSFVVQTAQ-----LGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPT 152

                         170
                  ....*....|....*..
gi 2462537585 175 IRSRCLAVRVPAPSIED 191
Cdd:PRK05707  153 IKSRCQQQACPLPSNEE 169
PRK08691 PRK08691
DNA polymerase III subunits gamma and tau; Validated
 7-222 1.03e-04

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236333 [Multi-domain]  Cd Length: 709  Bit Score: 43.93  E-value: 1.03e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPH-LLVYGPSGAGKKTrimcILRELygvgVEKLRIEHQTITTPSKKKIEIS 85
Cdd:PRK08691    9 KWRPKTFADLVGQEHVVKALQNALDEGRLHHaYLLTGTRGVGKTT----IARIL----AKSLNCENAQHGEPCGVCQSCT 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  86 TIASNYHLEVNPSDAGNSDRVviqEMLKTVAQSQQLETNSQRdFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCC 165
Cdd:PRK08691   81 QIDAGRYVDLLEIDAASNTGI---DNIREVLENAQYAPTAGK-YKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILAT 156

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585 166 NSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPS---QLAHRLAEKSCRN 222
Cdd:PRK08691  157 TDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIAYEPpalQLLGRAAAGSMRD 216
PRK14963 PRK14963
DNA polymerase III subunits gamma and tau; Provisional
 130-222 1.08e-04

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184927 [Multi-domain]  Cd Length: 504  Bit Score: 43.68  E-value: 1.08e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585 130 KVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPS 209
Cdd:PRK14963  118 KVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQHFRFRRLTEEEIAGKLRRLLEAEGREAEP 197

                          90
                  ....*....|....*.
gi 2462537585 210 ---QLAHRLAEKSCRN 222
Cdd:PRK14963  198 ealQLVARLADGAMRD 213
PRK04132 PRK04132
replication factor C small subunit; Provisional
 4-48 1.42e-04

replication factor C small subunit; Provisional


Pssm-ID: 235223 [Multi-domain]  Cd Length: 846  Bit Score: 43.67  E-value: 1.42e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 2462537585   4 WVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPHLLVYGPSGAGK 48
Cdd:PRK04132    9 WVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGK 53
PRK06305 PRK06305
DNA polymerase III subunits gamma and tau; Validated
 87-226 1.49e-04

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 180523 [Multi-domain]  Cd Length: 451  Bit Score: 43.22  E-value: 1.49e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  87 IASNYHLEVNPSDaGNSDRVV--IQEMLKTVaqsqqLETNSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILC 164
Cdd:PRK06305   84 ISSGTSLDVLEID-GASHRGIedIRQINETV-----LFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLA 157

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2462537585 165 CNSTSKVIPPIRSRC---LAVRVPAPSIEDichVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKA 226
Cdd:PRK06305  158 TTEIHKIPGTILSRCqkmHLKRIPEETIID---KLALIAKQEGIETSREALLPIARAAQGSLRDA 219
HLD_clamp_RFC cd18140
helical lid domain of replication factor C subunit; Replication factor C (RFC) is five-protein ...
 187-252 2.21e-04

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: 38.66  E-value: 2.21e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2462537585 187 PSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCEACRVQqypftaDQEIPETDWE 252
Cdd:cd18140     1 LSKEQIVKRLREICKKEGVKIDEEALEAIAEKSEGDMRKAINDLQAAAAG------GGVITEEDVY 60
PRK07132 PRK07132
DNA polymerase III subunit delta'; Validated
 121-192 2.95e-04

DNA polymerase III subunit delta'; Validated


Pssm-ID: 180855 [Multi-domain]  Cd Length: 299  Bit Score: 42.02  E-value: 2.95e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2462537585 121 LETNSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDI 192
Cdd:PRK07132   83 FSSFVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKI 154
PRK06645 PRK06645
DNA polymerase III subunits gamma and tau; Validated
 39-234 3.10e-04

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 180643 [Multi-domain]  Cd Length: 507  Bit Score: 42.54  E-value: 3.10e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  39 LVYGPSGAGKKTRIMCILRelyGVGVEKLRIEHQTITTPSKKKIEIStIASNYHLEVNPSDAGNSDRVviqEMLKTVAQS 118
Cdd:PRK06645   47 LLTGIRGVGKTTSARIIAK---AVNCSALITENTTIKTCEQCTNCIS-FNNHNHPDIIEIDAASKTSV---DDIRRIIES 119

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585 119 QQLETnSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLST 198
Cdd:PRK06645  120 AEYKP-LQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIISRCQRYDLRRLSFEEIFKLLEY 198

                         170       180       190
                  ....*....|....*....|....*....|....*.
gi 2462537585 199 VCKKEGLNLPSQLAHRLAEKSCRNLRKALLMCEACR 234
Cdd:PRK06645  199 ITKQENLKTDIEALRIIAYKSEGSARDAVSILDQAA 234
PRK14969 PRK14969
DNA polymerase III subunits gamma and tau; Provisional
 129-227 3.84e-04

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237873 [Multi-domain]  Cd Length: 527  Bit Score: 42.04  E-value: 3.84e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585 129 FKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAV---RVPAPSI-EDICHVLStvckKEG 204
Cdd:PRK14969  120 FKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFnlkQMPPPLIvSHLQHILE----QEN 195

                          90       100
                  ....*....|....*....|...
gi 2462537585 205 LNLPSQLAHRLAEKSCRNLRKAL 227
Cdd:PRK14969  196 IPFDATALQLLARAAAGSMRDAL 218
PRK09112 PRK09112
DNA polymerase III subunit delta'; Validated
 123-229 8.12e-04

DNA polymerase III subunit delta'; Validated


Pssm-ID: 169667 [Multi-domain]  Cd Length: 351  Bit Score: 40.79  E-value: 8.12e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585 123 TNSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVckk 202
Cdd:PRK09112  136 TSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHL--- 212

                          90       100
                  ....*....|....*....|....*....
gi 2462537585 203 eGLNLPSQLAHR--LAEKSCRNLRKALLM 229
Cdd:PRK09112  213 -GSSQGSDGEITeaLLQRSKGSVRKALLL 240
rad24 TIGR00602
checkpoint protein rad24; All proteins in this family for which functions are known are ...
 3-164 1.21e-03

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: 40.71  E-value: 1.21e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   3 LWVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPH-----LLVYGPSGAGKKTRIMCILRELygvgVEKLR--IEHQTIT 75
Cdd:TIGR00602  73 PWVEKYKPETQHELAVHKKKIEEVETWLKAQVLENapkriLLITGPSGCGKSTTIKILSKEL----GIQVQewSNPTLPD 148

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  76 TPSKKKIEISTIASNYHLEVnpsdagnSDRVVIQEMLKTVAQS-QQLETNSQRDFKVVLLTEVDK---LTKDAQHALRRT 151
Cdd:TIGR00602 149 FQKNDHKVTLSLESCFSNFQ-------SQIEVFSEFLLRATNKlQMLGDDLMTDKKIILVEDLPNqfyRDTRALHEILRW 221

                         170
                  ....*....|...
gi 2462537585 152 MEKYMSTCRLILC 164
Cdd:TIGR00602 222 KYVSIGRCPLVFI 234
Rad17 pfam03215
Rad17 P-loop domain;
3-169 1.70e-03

Rad17 P-loop domain;


Pssm-ID: 367398 [Multi-domain]  Cd Length: 186  Bit Score: 38.79  E-value: 1.70e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   3 LWVDKYRPCSLGRLDYHKEQAAQLRNLVQCGDFPH-----LLVYGPSGAGKKTRIMCILRELygvgVEKLR--IEHQTIT 75
Cdd:pfam03215   8 QWYEKYKPNCLEQLAVHKRKIKDVQEWLDAMFLENakhriLLISGPSGCGKSTVIKELSKEL----GPKYRewSNPTSFR 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  76 TPSKKKieistiaSNYHLEVNPSDAGNSDRVVIQEMLKTVAQS---QQLETNSQRDFKVVLLTEVDKLTKDAQHALRRTM 152
Cdd:pfam03215  84 SPPNQV-------TDFRGDCIVNSRFLSQMESFSEFELKGARYlvmQKRGKNAQGNKKLILIEDLPNVFHIDTRRFQQVI 156

                         170       180
                  ....*....|....*....|...
gi 2462537585 153 EKYMSTCR---LILC---CNSTS 169
Cdd:pfam03215 157 RQWLYSSEplpLIICiteCEILE 179
PRK14950 PRK14950
DNA polymerase III subunits gamma and tau; Provisional
 7-227 3.10e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237864 [Multi-domain]  Cd Length: 585  Bit Score: 39.41  E-value: 3.10e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585   7 KYRPCSLGRLDYHKEQAAQLRNLVQCGDFPH-LLVYGPSGAGKKTrimcilrelygvgVEKLRIEHQTITTPSKKKIEIS 85
Cdd:PRK14950    9 KWRSQTFAELVGQEHVVQTLRNAIAEGRVAHaYLFTGPRGVGKTS-------------TARILAKAVNCTTNDPKGRPCG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  86 T------IASNYHLEVNPSDAGNSDRVV-IQEMLKTVAQSQqletnSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMST 158
Cdd:PRK14950   76 TcemcraIAEGSAVDVIEMDAASHTSVDdAREIIERVQFRP-----ALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPH 150

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2462537585 159 CRLILCCNSTSKVIPPIRSRCLAVRVPAPSIEDICHVLSTVCKKEGLNLPSQLAHRLAEKSCRNLRKAL 227
Cdd:PRK14950  151 AIFILATTEVHKVPATILSRCQRFDFHRHSVADMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAE 219
AAA_22 pfam13401
AAA domain;
37-164 5.87e-03

AAA domain;


Pssm-ID: 379165 [Multi-domain]  Cd Length: 129  Bit Score: 36.55  E-value: 5.87e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462537585  37 HLLVYGPSGAGKKTRIMCILRELYGVGVEKLRIehqTITTPSKKKIEISTIASNYHLEVNpsdagnsDRVVIQEMLKTVA 116
Cdd:pfam13401   7 ILVLTGESGTGKTTLLRRLLEQLPEVRDSVVFV---DLPSGTSPKDLLRALLRALGLPLS-------GRLSKEELLAALQ 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 2462537585 117 qsQQLetNSQRDFKVVLLTEVDKLTKDAQHALRRTMEKYMSTCRLILC 164
Cdd:pfam13401  77 --QLL--LALAVAVVLIIDEAQHLSLEALEELRDLLNLSSKLLQLILV 120
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

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