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Conserved domains on  [gi|2564857957|ref|WP_306061308|]
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SOSS complex subunit B family protein [Natronococcus sp. AD-5]

Protein Classification

SOSS complex subunit B family protein( domain architecture ID 10139587)

SOSS complex subunit B family protein that contains an OB-fold nucleic acid binding domain; such as human SOSS complex subunit B2 (SSB2/NABP1), a component of the SOSS multiprotein complex that functions downstream of the MRN complex to promote DNA repair and G2/M checkpoint

Gene Ontology:  GO:0006281|GO:0005634|GO:0070876|GO:0003697
PubMed:  19683501|19683490

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SoSSB_OBF cd04491
SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus ...
 209-283 2.81e-12

SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB). SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In vitro, SSoSSB can substitute for the basal transcription factor TBP, stimulating transcription from promoters under conditions in which TBP is limiting, and supporting transcription when TBP is absent. SSoSSB selectively melts the duplex DNA of promoter sequences. It also relieves transcriptional repression by the chromatin Alba. In addition, SSoSSB activates reverse gyrase activity, which involves DNA binding, DNA cleavage, strand passage and ligation. SSoSSB stimulates all these steps in the presence of the chromatin protein, Sul7d. SSoSSB antagonizes the inhibitory effect of Sul7d on reverse gyrase supercoiling activity. It also physically and functionally interacts with Mini-chromosome Maintenance (MCM), stimulating the DNA helicase activity of MCM.


:

Pssm-ID: 239937 [Multi-domain]  Cd Length: 82  Bit Score: 61.10  E-value: 2.81e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2564857957 209 DVEGEIIKLWEPSQ------SSISQVGLIADETEKMKVTIWENSYQTTVREGETVRIRNA-AKNWhNERCNLAVTGWSRL 281
Cdd:cd04491     1 SVEGKVLSISEPREftrdgsEGKVQSGLVGDETGTIRFTLWDEKAADDLEPGDVVRIENAyVREF-NGRLELSVGKNSEI 79


                  ..
gi 2564857957 282 EF 283
Cdd:cd04491    80 EK 81
 
Name Accession Description Interval E-value
SoSSB_OBF cd04491
SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus ...
 209-283 2.81e-12

SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB). SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In vitro, SSoSSB can substitute for the basal transcription factor TBP, stimulating transcription from promoters under conditions in which TBP is limiting, and supporting transcription when TBP is absent. SSoSSB selectively melts the duplex DNA of promoter sequences. It also relieves transcriptional repression by the chromatin Alba. In addition, SSoSSB activates reverse gyrase activity, which involves DNA binding, DNA cleavage, strand passage and ligation. SSoSSB stimulates all these steps in the presence of the chromatin protein, Sul7d. SSoSSB antagonizes the inhibitory effect of Sul7d on reverse gyrase supercoiling activity. It also physically and functionally interacts with Mini-chromosome Maintenance (MCM), stimulating the DNA helicase activity of MCM.


Pssm-ID: 239937 [Multi-domain]  Cd Length: 82  Bit Score: 61.10  E-value: 2.81e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2564857957 209 DVEGEIIKLWEPSQ------SSISQVGLIADETEKMKVTIWENSYQTTVREGETVRIRNA-AKNWhNERCNLAVTGWSRL 281
Cdd:cd04491     1 SVEGKVLSISEPREftrdgsEGKVQSGLVGDETGTIRFTLWDEKAADDLEPGDVVRIENAyVREF-NGRLELSVGKNSEI 79


                  ..
gi 2564857957 282 EF 283
Cdd:cd04491    80 EK 81
PRK07217 PRK07217
replication factor A; Reviewed
 185-261 5.94e-12

replication factor A; Reviewed


Pssm-ID: 235970 [Multi-domain]  Cd Length: 311  Bit Score: 65.04  E-value: 5.94e-12
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2564857957 185 DEVKAESGT-IVDIADVPEVEAGeVDVEGEIIKLWEPSQSSISQVGLIADETEKMKVTIWENSYQTTVREGETVRIRN 261
Cdd:PRK07217   62 DELSGGGGSeLVNIADIDEPEQW-VDVTAKVVQLWEPSSDSIAQVGLLGDETGTIKFTKWAKSDLPELEEGKSYLLKN 138
RFA1 COG1599
ssDNA-binding replication factor A, large subunit [Replication, recombination and repair];
177-262 5.44e-07

ssDNA-binding replication factor A, large subunit [Replication, recombination and repair];


Pssm-ID: 441207 [Multi-domain]  Cd Length: 282  Bit Score: 50.06  E-value: 5.44e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2564857957 177 IDATLEEMDEVKA--ESGTIVDIADVpEVEAGEVDVEGEIIKLWEPSQ-------SSISQVGLIADETEKMKVTIWENSY 247
Cdd:COG1599     2 IEEHYEELADALGvsKEEFEVKISDL-SPGDRDVNVEGRVLEIGEERTfdrkdgsEGRVQSGVIGDETGRIRFTLWDDKA 80

                          90
                  ....*....|....*
gi 2564857957 248 QTTVREGETVRIRNA 262
Cdd:COG1599    81 DLELEEGDVVRIENA 95
 
Name Accession Description Interval E-value
SoSSB_OBF cd04491
SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus ...
 209-283 2.81e-12

SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB). SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In vitro, SSoSSB can substitute for the basal transcription factor TBP, stimulating transcription from promoters under conditions in which TBP is limiting, and supporting transcription when TBP is absent. SSoSSB selectively melts the duplex DNA of promoter sequences. It also relieves transcriptional repression by the chromatin Alba. In addition, SSoSSB activates reverse gyrase activity, which involves DNA binding, DNA cleavage, strand passage and ligation. SSoSSB stimulates all these steps in the presence of the chromatin protein, Sul7d. SSoSSB antagonizes the inhibitory effect of Sul7d on reverse gyrase supercoiling activity. It also physically and functionally interacts with Mini-chromosome Maintenance (MCM), stimulating the DNA helicase activity of MCM.


Pssm-ID: 239937 [Multi-domain]  Cd Length: 82  Bit Score: 61.10  E-value: 2.81e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2564857957 209 DVEGEIIKLWEPSQ------SSISQVGLIADETEKMKVTIWENSYQTTVREGETVRIRNA-AKNWhNERCNLAVTGWSRL 281
Cdd:cd04491     1 SVEGKVLSISEPREftrdgsEGKVQSGLVGDETGTIRFTLWDEKAADDLEPGDVVRIENAyVREF-NGRLELSVGKNSEI 79


                  ..
gi 2564857957 282 EF 283
Cdd:cd04491    80 EK 81
PRK07217 PRK07217
replication factor A; Reviewed
 185-261 5.94e-12

replication factor A; Reviewed


Pssm-ID: 235970 [Multi-domain]  Cd Length: 311  Bit Score: 65.04  E-value: 5.94e-12
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2564857957 185 DEVKAESGT-IVDIADVPEVEAGeVDVEGEIIKLWEPSQSSISQVGLIADETEKMKVTIWENSYQTTVREGETVRIRN 261
Cdd:PRK07217   62 DELSGGGGSeLVNIADIDEPEQW-VDVTAKVVQLWEPSSDSIAQVGLLGDETGTIKFTKWAKSDLPELEEGKSYLLKN 138
RFA1 COG1599
ssDNA-binding replication factor A, large subunit [Replication, recombination and repair];
177-262 5.44e-07

ssDNA-binding replication factor A, large subunit [Replication, recombination and repair];


Pssm-ID: 441207 [Multi-domain]  Cd Length: 282  Bit Score: 50.06  E-value: 5.44e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2564857957 177 IDATLEEMDEVKA--ESGTIVDIADVpEVEAGEVDVEGEIIKLWEPSQ-------SSISQVGLIADETEKMKVTIWENSY 247
Cdd:COG1599     2 IEEHYEELADALGvsKEEFEVKISDL-SPGDRDVNVEGRVLEIGEERTfdrkdgsEGRVQSGVIGDETGRIRFTLWDDKA 80

                          90
                  ....*....|....*
gi 2564857957 248 QTTVREGETVRIRNA 262
Cdd:COG1599    81 DLELEEGDVVRIENA 95
PRK12366 PRK12366
replication factor A; Reviewed
 175-285 4.12e-04

replication factor A; Reviewed


Pssm-ID: 237078 [Multi-domain]  Cd Length: 637  Bit Score: 41.57  E-value: 4.12e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2564857957 175 SMIDATLEEMDEVKAESGTIVDIADVPEVEAGE-VDVEGEIIKLWEPSQ------SSISQVGLIADETEKMKVTIWENSY 247
Cdd:PRK12366  260 SANNIEILEKLEKEEKELEIVNIEELTEFEDGEeVDVKGRIIAISDKREverddrTAEVQDIELADGTGRVRVSFWGEKA 339

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2564857957 248 QTT--VREGETVRIRNA-----AKNWHNERCNLAVTGWSRLEFPE 285
Cdd:PRK12366  340 KILenLKEGDAVKIENCkvrtyYDNEGEKRVDLNAGYSSEIIKDE 384
PRK06461 PRK06461
single-stranded DNA-binding protein; Reviewed
 191-262 5.77e-03

single-stranded DNA-binding protein; Reviewed


Pssm-ID: 180574 [Multi-domain]  Cd Length: 129  Bit Score: 36.17  E-value: 5.77e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2564857957 191 SGTIVDIADVPEVEAGeVDVEGEIIKLWEP-------SQSSISQVgLIADETEKMKVTIWeNSYQTTVREGETVRIRNA 262
Cdd:PRK06461    1 MEMITKIKDLKPGMER-VNVTVRVLEVGEPkviqtkgGPRTISEA-VVGDETGRVKLTLW-GEQAGSLKEGEVVEIENA 76
 
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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