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Conserved domains on  [gi|515672765|ref|WP_017105365|]
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MULTISPECIES: single-stranded DNA-binding protein [Vibrio]

Protein Classification

single-stranded DNA-binding protein( domain architecture ID 10793128)

single-stranded DNA (ssDNA)-binding protein plays a key role in DNA replication, recombination, and repair

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK09010 PRK09010
single-stranded DNA-binding protein; Provisional
 1-186 1.52e-97

single-stranded DNA-binding protein; Provisional


:

Pssm-ID: 236362 [Multi-domain]  Cd Length: 177  Bit Score: 279.81  E-value: 1.52e-97
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   1 MASRGVNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKATGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYI 80
Cdd:PRK09010   1 MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKQTGEMKEQTEWHRVVLFGKLAEVAGEYLRKGSQVYI 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765  81 EGQLQTRKWQDQSGQDRYTTEVVVqGFNGVMQMLGGRAQGGAPAqggmgnnqQQQGGWGQPQQPQQQQQQYSAPAQQQPK 160
Cdd:PRK09010  81 EGQLRTRKWTDQSGQDRYTTEVVV-NVGGTMQMLGGRQGGGAPA--------GGNIGGQQQGGWGQPQQPQGGNQFSGGA 151

                        170       180
                 ....*....|....*....|....*.
gi 515672765 161 APQQAPQQAQPQYNEPPMDFDDDIPF 186
Cdd:PRK09010 152 QSRPQQSAPAAPSNEPPMDFDDDIPF 177
 
Name Accession Description Interval E-value
PRK09010 PRK09010
single-stranded DNA-binding protein; Provisional
 1-186 1.52e-97

single-stranded DNA-binding protein; Provisional


Pssm-ID: 236362 [Multi-domain]  Cd Length: 177  Bit Score: 279.81  E-value: 1.52e-97
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   1 MASRGVNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKATGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYI 80
Cdd:PRK09010   1 MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKQTGEMKEQTEWHRVVLFGKLAEVAGEYLRKGSQVYI 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765  81 EGQLQTRKWQDQSGQDRYTTEVVVqGFNGVMQMLGGRAQGGAPAqggmgnnqQQQGGWGQPQQPQQQQQQYSAPAQQQPK 160
Cdd:PRK09010  81 EGQLRTRKWTDQSGQDRYTTEVVV-NVGGTMQMLGGRQGGGAPA--------GGNIGGQQQGGWGQPQQPQGGNQFSGGA 151

                        170       180
                 ....*....|....*....|....*.
gi 515672765 161 APQQAPQQAQPQYNEPPMDFDDDIPF 186
Cdd:PRK09010 152 QSRPQQSAPAAPSNEPPMDFDDDIPF 177
ssb TIGR00621
single stranded DNA-binding protein (ssb); All proteins in this family for which functions are ...
 3-186 3.57e-64

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: 194.94  E-value: 3.57e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765    3 SRGVNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKAtGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYIEG 82
Cdd:TIGR00621   1 MRMVNKVILVGRLTRDPELRYTPSGNAVANFTLATNRRWKDQD-GEWKEETEWHDIVIFGRLAEVAAQYLKKGSLVYVEG 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   83 QLQTRKWQDQSGQDRYTTEVVVQGFnGVMQMLGGRAQGGApaqggmgnnqqqqggwgqPQQPQQQQQQYSAPAQQQPKAP 162
Cdd:TIGR00621  80 RLRTRKWEDQNGQKRSKTEIIADNV-QLLDLLGARAQGGE------------------FSGGGGSGNRPQGGQEQSATGK 140

                         170       180
                  ....*....|....*....|....
gi 515672765  163 QQAPQQAQPQYNEPPMDFDDDIPF 186
Cdd:TIGR00621 141 DPAQSAPQSGSADPIDGDDDEIPF 164
Ssb COG0629
Single-stranded DNA-binding protein [Replication, recombination and repair];
6-124 1.14e-58

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


Pssm-ID: 440394  Cd Length: 116  Bit Score: 179.26  E-value: 1.14e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   6 VNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKaTGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYIEGQLQ 85
Cdd:COG0629    1 MNKVTLVGRLGKDPELRYTPSGTAVANFRLAVNRRYKDQ-DGEWKDETDWHRVVAWGKLAENAAEYLKKGDKVYVEGRLR 79

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 515672765  86 TRKWQDQSGQDRYTTEVVVQGfngvMQMLGGRAQGGAPA 124
Cdd:COG0629   80 TRSWEDKDGQKRYTTEVVADE----IQFLGSRPSGGGGG 114
SSB pfam00436
Single-strand binding protein family; This family includes single stranded binding proteins ...
 6-114 3.94e-50

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: 157.01  E-value: 3.94e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765    6 VNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKatGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYIEGQLQ 85
Cdd:pfam00436   1 MNKVILVGRLTRDPELRYTPNGNAVANFTLATNRRFKDR--GEGDEETDFHRVVVFGKLAEVAAQYLKKGSLVYVEGRLQ 78

                          90       100
                  ....*....|....*....|....*....
gi 515672765   86 TRKWQDQSGQDRYTTEVVVQgfngVMQML 114
Cdd:pfam00436  79 TRKYEDQEGQKRYVTEIVAD----EVQFL 103
SSB_OBF cd04496
SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs ...
 9-107 4.63e-43

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: 138.90  E-value: 4.63e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   9 VILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKatGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYIEGQLQTRK 88
Cdd:cd04496    1 VILIGRLGKDPELRYTPSGTPVARFSLAVNRRRKDR--DEEEEETDWIRVVAFGKLAENAAKYLKKGDLVYVEGRLRTRS 78

                         90
                 ....*....|....*....
gi 515672765  89 WQDQSGQDRYTTEVVVQGF 107
Cdd:cd04496   79 WEDKDGQKRYGTEVVADRI 97
 
Name Accession Description Interval E-value
PRK09010 PRK09010
single-stranded DNA-binding protein; Provisional
 1-186 1.52e-97

single-stranded DNA-binding protein; Provisional


Pssm-ID: 236362 [Multi-domain]  Cd Length: 177  Bit Score: 279.81  E-value: 1.52e-97
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   1 MASRGVNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKATGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYI 80
Cdd:PRK09010   1 MASRGVNKVILVGNLGQDPEVRYMPNGGAVANITLATSESWRDKQTGEMKEQTEWHRVVLFGKLAEVAGEYLRKGSQVYI 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765  81 EGQLQTRKWQDQSGQDRYTTEVVVqGFNGVMQMLGGRAQGGAPAqggmgnnqQQQGGWGQPQQPQQQQQQYSAPAQQQPK 160
Cdd:PRK09010  81 EGQLRTRKWTDQSGQDRYTTEVVV-NVGGTMQMLGGRQGGGAPA--------GGNIGGQQQGGWGQPQQPQGGNQFSGGA 151

                        170       180
                 ....*....|....*....|....*.
gi 515672765 161 APQQAPQQAQPQYNEPPMDFDDDIPF 186
Cdd:PRK09010 152 QSRPQQSAPAAPSNEPPMDFDDDIPF 177
PRK06863 PRK06863
single-stranded DNA-binding protein; Provisional
 5-186 1.93e-70

single-stranded DNA-binding protein; Provisional


Pssm-ID: 136097 [Multi-domain]  Cd Length: 168  Bit Score: 210.98  E-value: 1.93e-70
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   5 GVNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKATGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYIEGQL 84
Cdd:PRK06863   3 GINKVIIVGHLGNDPEIRTMPNGEAVANISVATSESWTDKNTGERREVTEWHRIVFYRRQAEVAGEYLRKGSQVYVEGRL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765  85 QTRKWQDQSGQDRYTTEvvVQGfnGVMQMLGGRAQGGAPAQGGMGNNQQQQGGWGQPQQPQQQQQQYSAPAQQQPKapqq 164
Cdd:PRK06863  83 KTRKWQDQNGQDRYTTE--IQG--DVLQMLGGRNQRNAGGYGNSGPAPQQSYQAGQTNNGNSQQASRPAPQQAAPQ---- 154

                        170       180
                 ....*....|....*....|...
gi 515672765 165 apqqaqpqyNEPPMD-FDDDIPF 186
Cdd:PRK06863 155 ---------AEPPMDgFDDDIPF 168
PRK05733 PRK05733
single-stranded DNA-binding protein; Provisional
 1-122 3.69e-69

single-stranded DNA-binding protein; Provisional


Pssm-ID: 235585 [Multi-domain]  Cd Length: 172  Bit Score: 207.86  E-value: 3.69e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   1 MAsRGVNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKATGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYI 80
Cdd:PRK05733   1 MA-RGVNKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVERTEWHRVSLFGKVAEIAGEYLRKGSQVYI 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 515672765  81 EGQLQTRKWQdQSGQDRYTTEVVVQgFNGVMQMLGGRAQGGA 122
Cdd:PRK05733  80 EGKLQTREWE-KDGIKRYTTEIVVD-MQGTMQLLGGRPQGDD 119
PRK13732 PRK13732
single-stranded DNA-binding protein; Provisional
 1-122 9.49e-65

single-stranded DNA-binding protein; Provisional


Pssm-ID: 184284 [Multi-domain]  Cd Length: 175  Bit Score: 196.88  E-value: 9.49e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   1 MASRGVNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKATGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYI 80
Cdd:PRK13732   1 MAVRGINKVILVGRLGKDPEVRYIPNGGAVANLQVATSESWRDKQTGEMREQTEWHRVVLFGKLAEVAGEYLRKGAQVYI 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 515672765  81 EGQLQTRKWQDqSGQDRYTTEVVVQGfNGVMQMLGGRAQGGA 122
Cdd:PRK13732  81 EGQLRTRSWED-NGITRYVTEILVKT-TGTMQMLGRAPQQNA 120
ssb TIGR00621
single stranded DNA-binding protein (ssb); All proteins in this family for which functions are ...
 3-186 3.57e-64

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: 194.94  E-value: 3.57e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765    3 SRGVNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKAtGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYIEG 82
Cdd:TIGR00621   1 MRMVNKVILVGRLTRDPELRYTPSGNAVANFTLATNRRWKDQD-GEWKEETEWHDIVIFGRLAEVAAQYLKKGSLVYVEG 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   83 QLQTRKWQDQSGQDRYTTEVVVQGFnGVMQMLGGRAQGGApaqggmgnnqqqqggwgqPQQPQQQQQQYSAPAQQQPKAP 162
Cdd:TIGR00621  80 RLRTRKWEDQNGQKRSKTEIIADNV-QLLDLLGARAQGGE------------------FSGGGGSGNRPQGGQEQSATGK 140

                         170       180
                  ....*....|....*....|....
gi 515672765  163 QQAPQQAQPQYNEPPMDFDDDIPF 186
Cdd:TIGR00621 141 DPAQSAPQSGSADPIDGDDDEIPF 164
PRK06341 PRK06341
single-stranded DNA-binding protein; Provisional
 6-121 6.66e-61

single-stranded DNA-binding protein; Provisional


Pssm-ID: 235782 [Multi-domain]  Cd Length: 166  Bit Score: 186.55  E-value: 6.66e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   6 VNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKATGEQREKTEWHRVALFGK-LAEVAGEYLRKGSQVYIEGQL 84
Cdd:PRK06341   5 VNKVILIGNLGADPEIRRTQDGRPIANLRIATSETWRDRNSGERKEKTEWHRVVIFNEgLCKVAEQYLKKGAKVYIEGQL 84

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 515672765  85 QTRKWQDQSGQDRYTTEVVVQGFNGVMQMLGGRAQGG 121
Cdd:PRK06341  85 QTRKWTDQSGVERYSTEVVLQGFNSTLTMLDGRGEGG 121
Ssb COG0629
Single-stranded DNA-binding protein [Replication, recombination and repair];
6-124 1.14e-58

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


Pssm-ID: 440394  Cd Length: 116  Bit Score: 179.26  E-value: 1.14e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   6 VNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKaTGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYIEGQLQ 85
Cdd:COG0629    1 MNKVTLVGRLGKDPELRYTPSGTAVANFRLAVNRRYKDQ-DGEWKDETDWHRVVAWGKLAENAAEYLKKGDKVYVEGRLR 79

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 515672765  86 TRKWQDQSGQDRYTTEVVVQGfngvMQMLGGRAQGGAPA 124
Cdd:COG0629   80 TRSWEDKDGQKRYTTEVVADE----IQFLGSRPSGGGGG 114
PRK06958 PRK06958
single-stranded DNA-binding protein; Provisional
 1-121 2.37e-58

single-stranded DNA-binding protein; Provisional


Pssm-ID: 180777 [Multi-domain]  Cd Length: 182  Bit Score: 180.76  E-value: 2.37e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   1 MASrgVNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKATGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYI 80
Cdd:PRK06958   1 MAS--VNKVILVGNLGADPEVRYLPSGDAVANIRLATTDRYKDKASGEFKEATEWHRVAFFGRLAEIVGEYLKKGSSVYI 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 515672765  81 EGQLQTRKWQDQSGQDRYTTEVVVQGfngvMQMLGGRAQGG 121
Cdd:PRK06958  79 EGRIRTRKWQGQDGQDRYSTEIVADQ----MQMLGGRGGSG 115
SSB pfam00436
Single-strand binding protein family; This family includes single stranded binding proteins ...
 6-114 3.94e-50

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: 157.01  E-value: 3.94e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765    6 VNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKatGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYIEGQLQ 85
Cdd:pfam00436   1 MNKVILVGRLTRDPELRYTPNGNAVANFTLATNRRFKDR--GEGDEETDFHRVVVFGKLAEVAAQYLKKGSLVYVEGRLQ 78

                          90       100
                  ....*....|....*....|....*....
gi 515672765   86 TRKWQDQSGQDRYTTEVVVQgfngVMQML 114
Cdd:pfam00436  79 TRKYEDQEGQKRYVTEIVAD----EVQFL 103
PRK06642 PRK06642
single-stranded DNA-binding protein; Provisional
 6-117 6.84e-47

single-stranded DNA-binding protein; Provisional


Pssm-ID: 135984  Cd Length: 152  Bit Score: 150.64  E-value: 6.84e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   6 VNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKATGEQREKTEWHRVALFGK-LAEVAGEYLRKGSQVYIEGQL 84
Cdd:PRK06642   5 LNKVILIGNVGRDPEIRTTGEGKKIINLSLATTETWKDRITSERKERTEWHRVVIFSEgLVSVVERYVTKGSKLYIEGSL 84

                         90       100       110
                 ....*....|....*....|....*....|...
gi 515672765  85 QTRKWQDQSGQDRYTTEVVVQGFNGVMQMLGGR 117
Cdd:PRK06642  85 QTRKWNDNSGQEKYTTEVVLQNFNSQLILLDSK 117
PRK08763 PRK08763
single-stranded DNA-binding protein; Provisional
 3-121 3.24e-45

single-stranded DNA-binding protein; Provisional


Pssm-ID: 181549 [Multi-domain]  Cd Length: 164  Bit Score: 146.62  E-value: 3.24e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   3 SRGVNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKaTGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYIEG 82
Cdd:PRK08763   2 ARGINKVILVGNLGNDPDIKYTQSGMTITRISLATTSVRKDR-EGNTQERTEWHRVKFFGKLGEIAGEYLRKGSQCYIEG 80

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 515672765  83 QLQTRKWQDQSGQDRYTTEVVVQGfngvMQMLGGRAQGG 121
Cdd:PRK08763  81 SIRYDKFTGQDGQERYVTEIVADE----MQMLGGRGEGG 115
SSB_OBF cd04496
SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs ...
 9-107 4.63e-43

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: 138.90  E-value: 4.63e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   9 VILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKatGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYIEGQLQTRK 88
Cdd:cd04496    1 VILIGRLGKDPELRYTPSGTPVARFSLAVNRRRKDR--DEEEEETDWIRVVAFGKLAENAAKYLKKGDLVYVEGRLRTRS 78

                         90
                 ....*....|....*....
gi 515672765  89 WQDQSGQDRYTTEVVVQGF 107
Cdd:cd04496   79 WEDKDGQKRYGTEVVADRI 97
PRK08486 PRK08486
single-stranded DNA-binding protein; Provisional
 7-121 2.00e-35

single-stranded DNA-binding protein; Provisional


Pssm-ID: 236275 [Multi-domain]  Cd Length: 182  Bit Score: 122.26  E-value: 2.00e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   7 NKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRdKATGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYIEGQLQT 86
Cdd:PRK08486   3 NKVILVGNLTRDVELRYLPSGSAIATIGLATSRRFK-KQDGEKGEEVCFIDIRLFGRTAEIANQYLSKGSKVLIEGRLTF 81

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 515672765  87 RKWQDQSGQDRYTTEVVVQGfngvMQMLGGRAQGG 121
Cdd:PRK08486  82 ESWMDQNGQKRSKHTITAES----MQMLDSKSDNP 112
PRK07459 PRK07459
single-stranded DNA-binding protein; Provisional
 5-124 1.90e-21

single-stranded DNA-binding protein; Provisional


Pssm-ID: 180986  Cd Length: 121  Bit Score: 84.35  E-value: 1.90e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   5 GVNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDkatgeqrEKTEWHRVALFGKLAEVAGEYLRKGSQVYIEGQL 84
Cdd:PRK07459   2 SLNSVTLVGRAGRDPEVRYFESGSVVCNLTLAVNRRSRD-------DEPDWFNLEIWGKTAQVAADYVKKGSLIGITGSL 74

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 515672765  85 QTRKWQD-QSGQDRYTTEVVVQGfngvMQMLGGRAQGGAPA 124
Cdd:PRK07459  75 KFDRWTDrNTGEDRSKPVIRVDR----LELLGSKRDSEGNA 111
PRK07274 PRK07274
single-stranded DNA-binding protein; Provisional
 7-119 1.52e-20

single-stranded DNA-binding protein; Provisional


Pssm-ID: 180914  Cd Length: 131  Bit Score: 82.50  E-value: 1.52e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   7 NKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDkATGEqREkTEWHRVALFGKLAEVAGEYLRKGSQVYIEGQLQT 86
Cdd:PRK07274   3 NKVILIGRLTATPELVKTANDKSVARVTLAVNRRFKN-QNGE-RE-ADFINVVLWGKLAETLASYASKGSLISIDGELRT 79

                         90       100       110
                 ....*....|....*....|....*....|...
gi 515672765  87 RKWqDQSGQDRYTTEVVVQGFngvmQMLGGRAQ 119
Cdd:PRK07274  80 RKY-EKDGQTHYVTEVLCQSF----QLLESRAQ 107
PRK06751 PRK06751
single-stranded DNA-binding protein; Provisional
 6-121 3.01e-17

single-stranded DNA-binding protein; Provisional


Pssm-ID: 168659 [Multi-domain]  Cd Length: 173  Bit Score: 75.22  E-value: 3.01e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   6 VNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDKaTGEQreKTEWHRVALFGKLAEVAGEYLRKGSQVYIEGQLQ 85
Cdd:PRK06751   2 MNRVILVGRLTKDPDLRYTPNGVAVATFTLAVNRAFANQ-QGER--EADFINCVIWRKQAENVANYLKKGSLAGVDGRLQ 78

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 515672765  86 TRKWQDQSGQDRYTTEVVVQGfngvMQMLGGRAQGG 121
Cdd:PRK06751  79 TRNYEGQDGKRVYVTEVLAES----VQFLEPRNGGG 110
PRK07275 PRK07275
single-stranded DNA-binding protein; Provisional
 6-118 4.94e-17

single-stranded DNA-binding protein; Provisional


Pssm-ID: 180915 [Multi-domain]  Cd Length: 162  Bit Score: 74.15  E-value: 4.94e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   6 VNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDkATGEqREkTEWHRVALFGKLAEVAGEYLRKGSQVYIEGQLQ 85
Cdd:PRK07275   2 INNVVLVGRMTRDAELRYTPSNVAVATFTLAVNRTFKS-QNGE-RE-ADFINCVIWRQQAENLANWAKKGALIGVTGRIQ 78

                         90       100       110
                 ....*....|....*....|....*....|...
gi 515672765  86 TRKWQDQSGQDRYTTEVVVQGFngvmQMLGGRA 118
Cdd:PRK07275  79 TRNYENQQGQRVYVTEVVADNF----QMLESRA 107
PRK06752 PRK06752
single-stranded DNA-binding protein; Validated
 6-105 1.24e-16

single-stranded DNA-binding protein; Validated


Pssm-ID: 168660  Cd Length: 112  Bit Score: 71.99  E-value: 1.24e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   6 VNKVILVGNLGNDPEIRYMPNGGAVANITIATSESWRDkATGEQreKTEWHRVALFGKLAEVAGEYLRKGSQVYIEGQLQ 85
Cdd:PRK06752   2 MNRVVLIGRLTKEPELYYTKQGVAYARVCVAVNRGFRN-SLGEQ--QVDFINCVVWRKSAENVTEYCTKGSLVGITGRIH 78

                         90       100
                 ....*....|....*....|
gi 515672765  86 TRKWQDQSGQDRYTTEVVVQ 105
Cdd:PRK06752  79 TRNYEDDQGKRIYITEVVIE 98
PRK07772 PRK07772
single-stranded DNA-binding protein; Provisional
 11-104 5.64e-14

single-stranded DNA-binding protein; Provisional


Pssm-ID: 236092 [Multi-domain]  Cd Length: 186  Bit Score: 66.60  E-value: 5.64e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765  11 LVGNLGNDPEIRYMPNGGAVANITIATSESWRDKATGEQRE-KTEWHRVALFGKLAEVAGEYLRKGSQVYIEGQLQTRKW 89
Cdd:PRK07772   9 VVGNLTADPELRFTPSGAAVANFTVASTPRTFDRQTNEWKDgEALFLRCSIWRQAAENVAESLTKGMRVIVTGRLKQRSY 88

                         90
                 ....*....|....*
gi 515672765  90 QDQSGQDRYTTEVVV 104
Cdd:PRK07772  89 ETREGEKRTVVELEV 103
PRK06293 PRK06293
single-stranded DNA-binding protein; Provisional
 9-104 9.05e-08

single-stranded DNA-binding protein; Provisional


Pssm-ID: 180517 [Multi-domain]  Cd Length: 161  Bit Score: 49.52  E-value: 9.05e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765   9 VILVGNLGNDPEIRYMPNGGAVANITIATseswrdKATGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYIEGQLQTRK 88
Cdd:PRK06293   4 GYIVGRLGADPEERMTSKGKRVVVLRLGV------KSRVGSKDETVWCRCNIWGNRYDKMLPYLKKGSGVIVAGEMSPES 77

                         90
                 ....*....|....*.
gi 515672765  89 WQDQSGQDRYTTEVVV 104
Cdd:PRK06293  78 YVDKDGSPQSSLVVSV 93
PRK08182 PRK08182
single-stranded DNA-binding protein; Provisional
 13-103 1.64e-06

single-stranded DNA-binding protein; Provisional


Pssm-ID: 169261  Cd Length: 148  Bit Score: 45.83  E-value: 1.64e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515672765  13 GNLGNDPEIRYMPNGG----AVANITIATSESWRDKATGEQREKTEWHRVALFGKLAEVAGEYLRKGSQVYIEGQLQTRK 88
Cdd:PRK08182   9 GNIGSAPEYREFPNGNdeprRLLRLNVYFDNPVPTKDGEYEDRGGFWAPVELWHRDAEHWARLYQKGMRVLVEGRMERDE 88

                         90
                 ....*....|....*
gi 515672765  89 WQDQSGQDRYTTEVV 103
Cdd:PRK08182  89 WTDNEDNERVTFKVE 103
PHA01740 PHA01740
putative single-stranded DNA-binding protein
 173-186 8.46e-04

putative single-stranded DNA-binding protein


Pssm-ID: 133956  Cd Length: 158  Bit Score: 38.20  E-value: 8.46e-04
                         10
                 ....*....|....
gi 515672765 173 YNEPPMDFDDDIPF 186
Cdd:PHA01740 145 YNEPPMDFDDDIPF 158
 
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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