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Conserved domains on  [gi|339784458|gb|AEK10165|]
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single-stranded DNA-binding protein [Mycobacterium phage SirDuracell]

Protein Classification

single stranded DNA-binding domain-containing protein( domain architecture ID 489)

single stranded DNA-binding domain-containing protein may bind preferentially to single-stranded DNA

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RPA_2b-aaRSs_OBF_like super family cl09930
Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with ...
 1-127 6.98e-68

Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold.; This superfamily includes two oligonucleotide/oligosaccharide binding fold (OBF) domain families. One of these contains the OBF domains of the large (RPA1, 70kDa), middle (RPA2, RPA4, 32kDa) and small (RPA3, 14 kDa) subunits of human heterotrimeric Replication protein A (RPA), and similar domains. RPA is a nuclear single-strand (ss) DNA-binding protein involved in most aspects of DNA metabolism. This family includes the four OBF domains of RPA1 [DNA-binding domain (DBD)-A, DBD-B, DBD-C, and RPA1N], the OBF domain of RPA2 (RPA2 DBD-D), RPA3, and the OBF domain of RPA4. The major DNA binding activity of human RPA and Saccharomyces cerevisiae RPA appears to be associated with DBD-A and -B, of RPA1. RPA1 DBD-C shows only weak ssDNA-binding activity and is involved in trimerization. The other OBF domain family in this superfamily is the N-terminal, anticodon recognition domain of class 2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids to their cognate tRNAs during protein biosynthesis. Class 2b aaRSs include the homodimeric aspartyl-, asparaginyl-, and lysyl-tRNA synthetases.


The actual alignment was detected with superfamily member PRK07772:

Pssm-ID: 471953 [Multi-domain]  Cd Length: 186  Bit Score: 203.34  E-value: 6.98e-68
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   1 MSKDLQVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGN-WVDGDATFLRCTIWRDAAENVAESLQKGQRVIVH 79
Cdd:PRK07772   1 MAGDTTITVVGNLTADPELRFTPSGAAVANFTVASTPRTFDRQTNeWKDGEALFLRCSIWRQAAENVAESLTKGMRVIVT 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 339784458  80 GYLKQRSFETREGDKRTVIEVEVDEIGPSLRWATARVSKV---GANSNGGG 127
Cdd:PRK07772  81 GRLKQRSYETREGEKRTVVELEVDEIGPSLRYATAKVTRAsrgGGGGGGGG 131
 
Name Accession Description Interval E-value
PRK07772 PRK07772
single-stranded DNA-binding protein; Provisional
 1-127 6.98e-68

single-stranded DNA-binding protein; Provisional


Pssm-ID: 236092 [Multi-domain]  Cd Length: 186  Bit Score: 203.34  E-value: 6.98e-68
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   1 MSKDLQVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGN-WVDGDATFLRCTIWRDAAENVAESLQKGQRVIVH 79
Cdd:PRK07772   1 MAGDTTITVVGNLTADPELRFTPSGAAVANFTVASTPRTFDRQTNeWKDGEALFLRCSIWRQAAENVAESLTKGMRVIVT 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 339784458  80 GYLKQRSFETREGDKRTVIEVEVDEIGPSLRWATARVSKV---GANSNGGG 127
Cdd:PRK07772  81 GRLKQRSYETREGEKRTVVELEVDEIGPSLRYATAKVTRAsrgGGGGGGGG 131
Ssb COG0629
Single-stranded DNA-binding protein [Replication, recombination and repair];
6-107 1.01e-44

Single-stranded DNA-binding protein [Replication, recombination and repair];


Pssm-ID: 440394  Cd Length: 116  Bit Score: 142.29  E-value: 1.01e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   6 QVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGNWVDgDATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQR 85
Cdd:COG0629    3 KVTLVGRLGKDPELRYTPSGTAVANFRLAVNRRYKDQDGEWKD-ETDWHRVVAWGKLAENAAEYLKKGDKVYVEGRLRTR 81

                         90       100
                 ....*....|....*....|..
gi 339784458  86 SFETREGDKRTVIEVEVDEIGP 107
Cdd:COG0629   82 SWEDKDGQKRYTTEVVADEIQF 103
ssb TIGR00621
single stranded DNA-binding protein (ssb); All proteins in this family for which functions are ...
 7-146 7.94e-39

single stranded DNA-binding protein (ssb); All proteins in this family for which functions are known are single-stranded DNA binding proteins that function in many processes including transcription, repair, replication and recombination. Members encoded between genes for ribosomal proteins S6 and S18 should be annotated as primosomal protein N (PriB). Forms in gamma-protoeobacteria are much shorter and poorly recognized by this model. Additional members of this family include phage proteins. Eukaryotic members are organellar proteins. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273179 [Multi-domain]  Cd Length: 164  Bit Score: 129.08  E-value: 7.94e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458    7 VHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGNWVDGdATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQRS 86
Cdd:TIGR00621   7 VILVGRLTRDPELRYTPSGNAVANFTLATNRRWKDQDGEWKEE-TEWHDIVIFGRLAEVAAQYLKKGSLVYVEGRLRTRK 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   87 FETREGDKRTVIEVEVDEIgPSLRWATARVSKVGANSNGG-GSSSFKEADANKWG-------------------DDEPPF 146
Cdd:TIGR00621  86 WEDQNGQKRSKTEIIADNV-QLLDLLGARAQGGEFSGGGGsGNRPQGGQEQSATGkdpaqsapqsgsadpidgdDDEIPF 164
SSB_OBF cd04496
SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs ...
 7-107 6.29e-36

SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart at forks that have stalled at sites of DNA damage. It also plays a role in the assembly of primosome during replication initiation at the bacteriophage phiX174 origin. PriB physically interacts with SSB and binds ssDNA with high affinity.


Pssm-ID: 239942  Cd Length: 100  Bit Score: 119.25  E-value: 6.29e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   7 VHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAqgNWVDGDATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQRS 86
Cdd:cd04496    1 VILIGRLGKDPELRYTPSGTPVARFSLAVNRRRKDR--DEEEEETDWIRVVAFGKLAENAAKYLKKGDLVYVEGRLRTRS 78

                         90       100
                 ....*....|....*....|.
gi 339784458  87 FETREGDKRTVIEVEVDEIGP 107
Cdd:cd04496   79 WEDKDGQKRYGTEVVADRIEF 99
SSB pfam00436
Single-strand binding protein family; This family includes single stranded binding proteins ...
 6-105 4.62e-32

Single-strand binding protein family; This family includes single stranded binding proteins and also the primosomal replication protein N (PriB). PriB forms a complex with PriA, PriC and ssDNA.


Pssm-ID: 425680  Cd Length: 103  Bit Score: 109.63  E-value: 4.62e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458    6 QVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDaqGNWVDGDATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQR 85
Cdd:pfam00436   3 KVILVGRLTRDPELRYTPNGNAVANFTLATNRRFKD--RGEGDEETDFHRVVVFGKLAEVAAQYLKKGSLVYVEGRLQTR 80

                          90       100
                  ....*....|....*....|
gi 339784458   86 SFETREGDKRTVIEVEVDEI 105
Cdd:pfam00436  81 KYEDQEGQKRYVTEIVADEV 100
 
Name Accession Description Interval E-value
PRK07772 PRK07772
single-stranded DNA-binding protein; Provisional
 1-127 6.98e-68

single-stranded DNA-binding protein; Provisional


Pssm-ID: 236092 [Multi-domain]  Cd Length: 186  Bit Score: 203.34  E-value: 6.98e-68
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   1 MSKDLQVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGN-WVDGDATFLRCTIWRDAAENVAESLQKGQRVIVH 79
Cdd:PRK07772   1 MAGDTTITVVGNLTADPELRFTPSGAAVANFTVASTPRTFDRQTNeWKDGEALFLRCSIWRQAAENVAESLTKGMRVIVT 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 339784458  80 GYLKQRSFETREGDKRTVIEVEVDEIGPSLRWATARVSKV---GANSNGGG 127
Cdd:PRK07772  81 GRLKQRSYETREGEKRTVVELEVDEIGPSLRYATAKVTRAsrgGGGGGGGG 131
Ssb COG0629
Single-stranded DNA-binding protein [Replication, recombination and repair];
6-107 1.01e-44

Single-stranded DNA-binding protein [Replication, recombination and repair];


Pssm-ID: 440394  Cd Length: 116  Bit Score: 142.29  E-value: 1.01e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   6 QVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGNWVDgDATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQR 85
Cdd:COG0629    3 KVTLVGRLGKDPELRYTPSGTAVANFRLAVNRRYKDQDGEWKD-ETDWHRVVAWGKLAENAAEYLKKGDKVYVEGRLRTR 81

                         90       100
                 ....*....|....*....|..
gi 339784458  86 SFETREGDKRTVIEVEVDEIGP 107
Cdd:COG0629   82 SWEDKDGQKRYTTEVVADEIQF 103
ssb TIGR00621
single stranded DNA-binding protein (ssb); All proteins in this family for which functions are ...
 7-146 7.94e-39

single stranded DNA-binding protein (ssb); All proteins in this family for which functions are known are single-stranded DNA binding proteins that function in many processes including transcription, repair, replication and recombination. Members encoded between genes for ribosomal proteins S6 and S18 should be annotated as primosomal protein N (PriB). Forms in gamma-protoeobacteria are much shorter and poorly recognized by this model. Additional members of this family include phage proteins. Eukaryotic members are organellar proteins. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273179 [Multi-domain]  Cd Length: 164  Bit Score: 129.08  E-value: 7.94e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458    7 VHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGNWVDGdATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQRS 86
Cdd:TIGR00621   7 VILVGRLTRDPELRYTPSGNAVANFTLATNRRWKDQDGEWKEE-TEWHDIVIFGRLAEVAAQYLKKGSLVYVEGRLRTRK 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   87 FETREGDKRTVIEVEVDEIgPSLRWATARVSKVGANSNGG-GSSSFKEADANKWG-------------------DDEPPF 146
Cdd:TIGR00621  86 WEDQNGQKRSKTEIIADNV-QLLDLLGARAQGGEFSGGGGsGNRPQGGQEQSATGkdpaqsapqsgsadpidgdDDEIPF 164
SSB_OBF cd04496
SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs ...
 7-107 6.29e-36

SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart at forks that have stalled at sites of DNA damage. It also plays a role in the assembly of primosome during replication initiation at the bacteriophage phiX174 origin. PriB physically interacts with SSB and binds ssDNA with high affinity.


Pssm-ID: 239942  Cd Length: 100  Bit Score: 119.25  E-value: 6.29e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   7 VHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAqgNWVDGDATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQRS 86
Cdd:cd04496    1 VILIGRLGKDPELRYTPSGTPVARFSLAVNRRRKDR--DEEEEETDWIRVVAFGKLAENAAKYLKKGDLVYVEGRLRTRS 78

                         90       100
                 ....*....|....*....|.
gi 339784458  87 FETREGDKRTVIEVEVDEIGP 107
Cdd:cd04496   79 WEDKDGQKRYGTEVVADRIEF 99
SSB pfam00436
Single-strand binding protein family; This family includes single stranded binding proteins ...
 6-105 4.62e-32

Single-strand binding protein family; This family includes single stranded binding proteins and also the primosomal replication protein N (PriB). PriB forms a complex with PriA, PriC and ssDNA.


Pssm-ID: 425680  Cd Length: 103  Bit Score: 109.63  E-value: 4.62e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458    6 QVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDaqGNWVDGDATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQR 85
Cdd:pfam00436   3 KVILVGRLTRDPELRYTPNGNAVANFTLATNRRFKD--RGEGDEETDFHRVVVFGKLAEVAAQYLKKGSLVYVEGRLQTR 80

                          90       100
                  ....*....|....*....|
gi 339784458   86 SFETREGDKRTVIEVEVDEI 105
Cdd:pfam00436  81 KYEDQEGQKRYVTEIVADEV 100
PRK05853 PRK05853
hypothetical protein; Validated
 9-145 1.16e-20

hypothetical protein; Validated


Pssm-ID: 235626  Cd Length: 161  Bit Score: 82.19  E-value: 1.16e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   9 LVGTLTADPELRFTsGGQAVANFTVVSNERRRDAQGNWVDGDATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQRSFE 88
Cdd:PRK05853   1 VVGHIVNDPQRRKV-GDQEVIKFRVASNSRRRTADGGWEPGNSLFITVNCWGRLVTGVGAALGKGAPVIVVGHVYTSEYE 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 339784458  89 TREGDKRTVIEVEVDEIGPSLRWATARVSKVGANsnggGSSSFKEADANKWGDDEPP 145
Cdd:PRK05853  80 DRDGNRRSSLEMRATSVGPDLSRCIVRIEKPRYT----GPSAGEAPAATGTGAADAA 132
PRK07275 PRK07275
single-stranded DNA-binding protein; Provisional
 7-146 8.41e-20

single-stranded DNA-binding protein; Provisional


Pssm-ID: 180915 [Multi-domain]  Cd Length: 162  Bit Score: 80.32  E-value: 8.41e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   7 VHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGnwvDGDATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQRS 86
Cdd:PRK07275   5 VVLVGRMTRDAELRYTPSNVAVATFTLAVNRTFKSQNG---EREADFINCVIWRQQAENLANWAKKGALIGVTGRIQTRN 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 339784458  87 FETREGDKRTVIEVEVDEIgPSLRWATARVSKVGANSNGGG----SSSFKEADANK---WGDDEPPF 146
Cdd:PRK07275  82 YENQQGQRVYVTEVVADNF-QMLESRATREGGSGGSYNGGFnnapSANSYSAPAQQtpnFGRDESPF 147
PRK06751 PRK06751
single-stranded DNA-binding protein; Provisional
 6-105 2.48e-18

single-stranded DNA-binding protein; Provisional


Pssm-ID: 168659 [Multi-domain]  Cd Length: 173  Bit Score: 76.76  E-value: 2.48e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   6 QVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGnwvDGDATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQR 85
Cdd:PRK06751   4 RVILVGRLTKDPDLRYTPNGVAVATFTLAVNRAFANQQG---EREADFINCVIWRKQAENVANYLKKGSLAGVDGRLQTR 80

                         90       100
                 ....*....|....*....|
gi 339784458  86 SFETREGDKRTVIEVEVDEI 105
Cdd:PRK06751  81 NYEGQDGKRVYVTEVLAESV 100
PRK06293 PRK06293
single-stranded DNA-binding protein; Provisional
 7-105 1.59e-15

single-stranded DNA-binding protein; Provisional


Pssm-ID: 180517 [Multi-domain]  Cd Length: 161  Bit Score: 69.16  E-value: 1.59e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   7 VHLVGTLTADPELRFTSGGQAVANFTVVSNERR-RDAQGNWVdgdatflRCTIWRDAAENVAESLQKGQRVIVHGYLKQR 85
Cdd:PRK06293   4 GYIVGRLGADPEERMTSKGKRVVVLRLGVKSRVgSKDETVWC-------RCNIWGNRYDKMLPYLKKGSGVIVAGEMSPE 76

                         90       100
                 ....*....|....*....|
gi 339784458  86 SFETREGDKRTVIEVEVDEI 105
Cdd:PRK06293  77 SYVDKDGSPQSSLVVSVDTI 96
PRK06752 PRK06752
single-stranded DNA-binding protein; Validated
 6-105 3.01e-15

single-stranded DNA-binding protein; Validated


Pssm-ID: 168660  Cd Length: 112  Bit Score: 66.98  E-value: 3.01e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   6 QVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGnwvDGDATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQR 85
Cdd:PRK06752   4 RVVLIGRLTKEPELYYTKQGVAYARVCVAVNRGFRNSLG---EQQVDFINCVVWRKSAENVTEYCTKGSLVGITGRIHTR 80

                         90       100
                 ....*....|....*....|
gi 339784458  86 SFETREGDKRTVIEVEVDEI 105
Cdd:PRK06752  81 NYEDDQGKRIYITEVVIESI 100
PRK13732 PRK13732
single-stranded DNA-binding protein; Provisional
 6-106 5.66e-14

single-stranded DNA-binding protein; Provisional


Pssm-ID: 184284 [Multi-domain]  Cd Length: 175  Bit Score: 65.14  E-value: 5.66e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   6 QVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGNWVDGDATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQR 85
Cdd:PRK13732   8 KVILVGRLGKDPEVRYIPNGGAVANLQVATSESWRDKQTGEMREQTEWHRVVLFGKLAEVAGEYLRKGAQVYIEGQLRTR 87

                         90       100
                 ....*....|....*....|.
gi 339784458  86 SFETrEGDKRTVIEVEVDEIG 106
Cdd:PRK13732  88 SWED-NGITRYVTEILVKTTG 107
PRK09010 PRK09010
single-stranded DNA-binding protein; Provisional
 6-145 1.14e-11

single-stranded DNA-binding protein; Provisional


Pssm-ID: 236362 [Multi-domain]  Cd Length: 177  Bit Score: 59.09  E-value: 1.14e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   6 QVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGNWVDGDATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQR 85
Cdd:PRK09010   8 KVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKQTGEMKEQTEWHRVVLFGKLAEVAGEYLRKGSQVYIEGQLRTR 87

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458  86 SFETREGDKRTVIEVeVDEIGPSLRWATARVSkvGANSNGGGSSSfkeADANKWGDDEPP 145
Cdd:PRK09010  88 KWTDQSGQDRYTTEV-VVNVGGTMQMLGGRQG--GGAPAGGNIGG---QQQGGWGQPQQP 141
PRK05733 PRK05733
single-stranded DNA-binding protein; Provisional
 6-130 2.13e-11

single-stranded DNA-binding protein; Provisional


Pssm-ID: 235585 [Multi-domain]  Cd Length: 172  Bit Score: 58.40  E-value: 2.13e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   6 QVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGNWVDGDATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQR 85
Cdd:PRK05733   7 KVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVERTEWHRVSLFGKVAEIAGEYLRKGSQVYIEGKLQTR 86

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 339784458  86 SFEtREGDKRTVIEVEVDEIGpSLRWATARVSKVGANSNGGGSSS 130
Cdd:PRK05733  87 EWE-KDGIKRYTTEIVVDMQG-TMQLLGGRPQGDDQGGQGGGNYN 129
PRK06863 PRK06863
single-stranded DNA-binding protein; Provisional
 6-103 5.93e-11

single-stranded DNA-binding protein; Provisional


Pssm-ID: 136097 [Multi-domain]  Cd Length: 168  Bit Score: 57.28  E-value: 5.93e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   6 QVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGNWVDGDATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQR 85
Cdd:PRK06863   6 KVIIVGHLGNDPEIRTMPNGEAVANISVATSESWTDKNTGERREVTEWHRIVFYRRQAEVAGEYLRKGSQVYVEGRLKTR 85

                         90
                 ....*....|....*...
gi 339784458  86 SFETREGDKRTVIEVEVD 103
Cdd:PRK06863  86 KWQDQNGQDRYTTEIQGD 103
PRK06958 PRK06958
single-stranded DNA-binding protein; Provisional
 6-105 1.35e-10

single-stranded DNA-binding protein; Provisional


Pssm-ID: 180777 [Multi-domain]  Cd Length: 182  Bit Score: 56.34  E-value: 1.35e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   6 QVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGNWVDGDATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQR 85
Cdd:PRK06958   6 KVILVGNLGADPEVRYLPSGDAVANIRLATTDRYKDKASGEFKEATEWHRVAFFGRLAEIVGEYLKKGSSVYIEGRIRTR 85

                         90       100
                 ....*....|....*....|
gi 339784458  86 SFETREGDKRTVIEVEVDEI 105
Cdd:PRK06958  86 KWQGQDGQDRYSTEIVADQM 105
PRK07459 PRK07459
single-stranded DNA-binding protein; Provisional
 6-101 8.91e-10

single-stranded DNA-binding protein; Provisional


Pssm-ID: 180986  Cd Length: 121  Bit Score: 53.15  E-value: 8.91e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   6 QVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGNWVDgdatflrCTIWRDAAENVAESLQKGQRVIVHGYLKQR 85
Cdd:PRK07459   5 SVTLVGRAGRDPEVRYFESGSVVCNLTLAVNRRSRDDEPDWFN-------LEIWGKTAQVAADYVKKGSLIGITGSLKFD 77

                         90
                 ....*....|....*....
gi 339784458  86 SFETR---EGDKRTVIEVE 101
Cdd:PRK07459  78 RWTDRntgEDRSKPVIRVD 96
PRK07274 PRK07274
single-stranded DNA-binding protein; Provisional
 6-100 1.44e-09

single-stranded DNA-binding protein; Provisional


Pssm-ID: 180914  Cd Length: 131  Bit Score: 52.84  E-value: 1.44e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   6 QVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGnwvDGDATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQR 85
Cdd:PRK07274   4 KVILIGRLTATPELVKTANDKSVARVTLAVNRRFKNQNG---EREADFINVVLWGKLAETLASYASKGSLISIDGELRTR 80

                         90
                 ....*....|....*
gi 339784458  86 SFEtREGDKRTVIEV 100
Cdd:PRK07274  81 KYE-KDGQTHYVTEV 94
PRK08763 PRK08763
single-stranded DNA-binding protein; Provisional
 6-146 9.20e-09

single-stranded DNA-binding protein; Provisional


Pssm-ID: 181549 [Multi-domain]  Cd Length: 164  Bit Score: 51.09  E-value: 9.20e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   6 QVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGNWVDgDATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQR 85
Cdd:PRK08763   7 KVILVGNLGNDPDIKYTQSGMTITRISLATTSVRKDREGNTQE-RTEWHRVKFFGKLGEIAGEYLRKGSQCYIEGSIRYD 85

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 339784458  86 SFETREGDKRTVIEVEVDEI---------------GPSLRWATARVSKVGANSNGGGSSSFKEADA---NKWGDDEPPF 146
Cdd:PRK08763  86 KFTGQDGQERYVTEIVADEMqmlggrgegggggggGIRPQRQPAPRQNNGQDYAPRRQQPAPQQSAppmDDFADDDIPF 164
PRK06341 PRK06341
single-stranded DNA-binding protein; Provisional
 6-130 2.20e-08

single-stranded DNA-binding protein; Provisional


Pssm-ID: 235782 [Multi-domain]  Cd Length: 166  Bit Score: 50.19  E-value: 2.20e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   6 QVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGNWVDGDATFLRCTIWRDAAENVAES-LQKGQRVIVHGYLKQ 84
Cdd:PRK06341   7 KVILIGNLGADPEIRRTQDGRPIANLRIATSETWRDRNSGERKEKTEWHRVVIFNEGLCKVAEQyLKKGAKVYIEGQLQT 86

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 339784458  85 RSFETREGDKRTVIEVEVDEIGPSLRWATARVSKVGANSNGGGSSS 130
Cdd:PRK06341  87 RKWTDQSGVERYSTEVVLQGFNSTLTMLDGRGEGGGGGGGGDDGGG 132
PRK08486 PRK08486
single-stranded DNA-binding protein; Provisional
 6-101 4.98e-08

single-stranded DNA-binding protein; Provisional


Pssm-ID: 236275 [Multi-domain]  Cd Length: 182  Bit Score: 49.46  E-value: 4.98e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   6 QVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGNWVDgDATFLRCTIWRDAAENVAESLQKGQRVIVHGYLKQR 85
Cdd:PRK08486   4 KVILVGNLTRDVELRYLPSGSAIATIGLATSRRFKKQDGEKGE-EVCFIDIRLFGRTAEIANQYLSKGSKVLIEGRLTFE 82

                         90
                 ....*....|....*...
gi 339784458  86 SFETREGDKRT--VIEVE 101
Cdd:PRK08486  83 SWMDQNGQKRSkhTITAE 100
PRK06642 PRK06642
single-stranded DNA-binding protein; Provisional
 6-146 2.14e-07

single-stranded DNA-binding protein; Provisional


Pssm-ID: 135984  Cd Length: 152  Bit Score: 47.41  E-value: 2.14e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   6 QVHLVGTLTADPELRFTSGGQAVANFTVVSNERRRDAQGNWVDGDATFLRCTIWRDAAENVAES-LQKGQRVIVHGYLKQ 84
Cdd:PRK06642   7 KVILIGNVGRDPEIRTTGEGKKIINLSLATTETWKDRITSERKERTEWHRVVIFSEGLVSVVERyVTKGSKLYIEGSLQT 86

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 339784458  85 RSFETREGDKRTVIEVEVDEIGPSLRWATARVSKvgANSNGGGSSSFKEADANKWG------DDEPPF 146
Cdd:PRK06642  87 RKWNDNSGQEKYTTEVVLQNFNSQLILLDSKNSN--NHNQDSGHSEYKHPETKNHSfdhsdlDDEIPF 152
ExoVII_LU_OBF cd04489
ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of ...
 34-108 5.38e-07

ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.


Pssm-ID: 239935 [Multi-domain]  Cd Length: 78  Bit Score: 44.43  E-value: 5.38e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 339784458  34 VSNERRRDAqGNW----VDGDATfLRCTIWRDAAENVAESLQKGQRVIVHGYLkqrSFETREGDkrtvIEVEVDEIGPS 108
Cdd:cd04489    8 ISNLKRPSS-GHLyftlKDEDAS-IRCVMWRSNARRLGFPLEEGMEVLVRGKV---SFYEPRGG----YQLIVEEIEPA 77
PRK08182 PRK08182
single-stranded DNA-binding protein; Provisional
 58-106 3.06e-06

single-stranded DNA-binding protein; Provisional


Pssm-ID: 169261  Cd Length: 148  Bit Score: 43.90  E-value: 3.06e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 339784458  58 IWRDAAENVAESLQKGQRVIVHGYLKQRSFETREGDKRTVIEVEVDEIG 106
Cdd:PRK08182  60 LWHRDAEHWARLYQKGMRVLVEGRMERDEWTDNEDNERVTFKVEARRVG 108
tRNA_anti_2 pfam13742
OB-fold nucleic acid binding domain; This family contains OB-fold domains that bind to nucleic ...
 34-82 4.84e-06

OB-fold nucleic acid binding domain; This family contains OB-fold domains that bind to nucleic acids.


Pssm-ID: 463974 [Multi-domain]  Cd Length: 95  Bit Score: 42.44  E-value: 4.84e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 339784458   34 VSNERRRDAqGNW----VDGDATfLRCTIWRDAAENVAESLQKGQRVIVHGYL 82
Cdd:pfam13742  28 ISNLKRRSS-GHLyftlKDEKAQ-IRCVMFRSRARRLKFTPEDGMKVLVRGRV 78
tRNA_anti-codon pfam01336
OB-fold nucleic acid binding domain; This family contains OB-fold domains that bind to nucleic ...
 48-105 1.26e-04

OB-fold nucleic acid binding domain; This family contains OB-fold domains that bind to nucleic acids. The family includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl -tRNA synthetases (See pfam00152). Aminoacyl-tRNA synthetases catalyze the addition of an amino acid to the appropriate tRNA molecule EC:6.1.1.-. This family also includes part of RecG helicase involved in DNA repair. Replication factor A is a hetero-trimeric complex, that contains a subunit in this family. This domain is also found at the C-terminus of bacterial DNA polymerase III alpha chain.


Pssm-ID: 460164 [Multi-domain]  Cd Length: 75  Bit Score: 38.37  E-value: 1.26e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 339784458   48 DGDATfLRCTIWRDAAENVAESLQKGQRVIVHGYLKQRsfetregdKRTVIEVEVDEI 105
Cdd:pfam01336  24 DGTGS-IQVVVFKEEAEKLAKKLKEGDVVRVTGKVKKR--------KGGELELVVEEI 72
RPA2_OBF_family cd03524
RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold ...
 9-90 2.46e-04

RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold of the single strand (ss) DNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA contains six OB folds, which are involved in ssDNA binding and in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. This family also includes OB folds similar to those found in Escherichia coli SSB, the wedge domain of E. coli RecG (a branched-DNA-specific helicase), E. coli ssDNA specific exodeoxyribonuclease VII large subunit, Pyrococcus abyssi DNA polymerase II (Pol II) small subunit, Sulfolobus solfataricus SSB, and Bacillus subtilis YhaM (a 3'-to-5'exoribonuclease). It also includes the OB folds of breast cancer susceptibility gene 2 protein (BRCA2), Oxytricha nova telomere end binding protein (TEBP), Saccharomyces cerevisiae telomere-binding protein (Cdc13), and human protection of telomeres 1 protein (POT1).


Pssm-ID: 239601 [Multi-domain]  Cd Length: 75  Bit Score: 37.34  E-value: 2.46e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 339784458   9 LVGTLTADPELRFTSggqAVANFTVvsnerrRDAQGNWVdgdatflRCTIWRDAAENVAESLQKGQRVIVHGYLKQRSFE 88
Cdd:cd03524    2 IVGIVVAVEEIRTEG---KVLIFTL------TDGTGGTI-------RVTLFGELAEELENLLKEGQVVYIKGKVKKFRGR 65


                 ..
gi 339784458  89 TR 90
Cdd:cd03524   66 LQ 67
 
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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