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Conserved domains on  [gi|20129311|ref|NP_609115|]
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uncharacterized protein Dmel_CG5181 [Drosophila melanogaster]

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 ...
 20-97 2.42e-16

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: 70.73  E-value: 2.42e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20129311  20 NVIFIVLEVGVATVT---KENREVRNFKVGDPTACINVSIWDEPGKL-IAPGDIVRLTKGYASIWRHCLTLYSGKNGEVF 95
Cdd:cd04491   1 SVEGKVLSISEPREFtrdGSEGKVQSGLVGDETGTIRFTLWDEKAADdLEPGDVVRIENAYVREFNGRLELSVGKNSEIE 80


                ..
gi 20129311  96 KI 97
Cdd:cd04491  81 KL 82
 
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 ...
 20-97 2.42e-16

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: 70.73  E-value: 2.42e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20129311  20 NVIFIVLEVGVATVT---KENREVRNFKVGDPTACINVSIWDEPGKL-IAPGDIVRLTKGYASIWRHCLTLYSGKNGEVF 95
Cdd:cd04491   1 SVEGKVLSISEPREFtrdGSEGKVQSGLVGDETGTIRFTLWDEKAADdLEPGDVVRIENAYVREFNGRLELSVGKNSEIE 80


                ..
gi 20129311  96 KI 97
Cdd:cd04491  81 KL 82
PRK06461 PRK06461
single-stranded DNA-binding protein; Reviewed
 9-112 3.70e-15

single-stranded DNA-binding protein; Reviewed


Pssm-ID: 180574 [Multi-domain]  Cd Length: 129  Bit Score: 68.91  E-value: 3.70e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20129311    9 IKDIKPGLKNINVIFIVLEVG---VATVTKENREVRNFKVGDPTACINVSIWDEPGKLIAPGDIVRLTKGYASIWRHCLT 85
Cdd:PRK06461   7 IKDLKPGMERVNVTVRVLEVGepkVIQTKGGPRTISEAVVGDETGRVKLTLWGEQAGSLKEGEVVEIENAWTTLYRGKVQ 86

                         90       100
                 ....*....|....*....|....*..
gi 20129311   86 LYSGKNGEVFKIGEycMVFNESVNMSE 112
Cdd:PRK06461  87 LNVGKYGSISESDD--EEVPEAEEIPE 111
RFA1 COG1599
ssDNA-binding replication factor A, large subunit [Replication, recombination and repair];
6-99 2.50e-11

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


Pssm-ID: 441207 [Multi-domain]  Cd Length: 282  Bit Score: 61.23  E-value: 2.50e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20129311   6 CIPIKDIKPGLKNINVIFIVLEVG-VATVTKEN---REVRNFKVGDPTACINVSIWDEPGKL-IAPGDIVRLTKGYASIW 80
Cdd:COG1599  21 EVKISDLSPGDRDVNVEGRVLEIGeERTFDRKDgseGRVQSGVIGDETGRIRFTLWDDKADLeLEEGDVVRIENAYVREF 100

                        90
                ....*....|....*....
gi 20129311  81 RHCLTLYSGKNGEVFKIGE 99
Cdd:COG1599 101 NGGPELNLGERTTIEKLDE 119
 
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 ...
 20-97 2.42e-16

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: 70.73  E-value: 2.42e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20129311  20 NVIFIVLEVGVATVT---KENREVRNFKVGDPTACINVSIWDEPGKL-IAPGDIVRLTKGYASIWRHCLTLYSGKNGEVF 95
Cdd:cd04491   1 SVEGKVLSISEPREFtrdGSEGKVQSGLVGDETGTIRFTLWDEKAADdLEPGDVVRIENAYVREFNGRLELSVGKNSEIE 80


                ..
gi 20129311  96 KI 97
Cdd:cd04491  81 KL 82
PRK06461 PRK06461
single-stranded DNA-binding protein; Reviewed
 9-112 3.70e-15

single-stranded DNA-binding protein; Reviewed


Pssm-ID: 180574 [Multi-domain]  Cd Length: 129  Bit Score: 68.91  E-value: 3.70e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20129311    9 IKDIKPGLKNINVIFIVLEVG---VATVTKENREVRNFKVGDPTACINVSIWDEPGKLIAPGDIVRLTKGYASIWRHCLT 85
Cdd:PRK06461   7 IKDLKPGMERVNVTVRVLEVGepkVIQTKGGPRTISEAVVGDETGRVKLTLWGEQAGSLKEGEVVEIENAWTTLYRGKVQ 86

                         90       100
                 ....*....|....*....|....*..
gi 20129311   86 LYSGKNGEVFKIGEycMVFNESVNMSE 112
Cdd:PRK06461  87 LNVGKYGSISESDD--EEVPEAEEIPE 111
RFA1 COG1599
ssDNA-binding replication factor A, large subunit [Replication, recombination and repair];
6-99 2.50e-11

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


Pssm-ID: 441207 [Multi-domain]  Cd Length: 282  Bit Score: 61.23  E-value: 2.50e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20129311   6 CIPIKDIKPGLKNINVIFIVLEVG-VATVTKEN---REVRNFKVGDPTACINVSIWDEPGKL-IAPGDIVRLTKGYASIW 80
Cdd:COG1599  21 EVKISDLSPGDRDVNVEGRVLEIGeERTFDRKDgseGRVQSGVIGDETGRIRFTLWDDKADLeLEEGDVVRIENAYVREF 100

                        90
                ....*....|....*....
gi 20129311  81 RHCLTLYSGKNGEVFKIGE 99
Cdd:COG1599 101 NGGPELNLGERTTIEKLDE 119
PRK12366 PRK12366
replication factor A; Reviewed
 8-100 4.15e-06

replication factor A; Reviewed


Pssm-ID: 237078 [Multi-domain]  Cd Length: 637  Bit Score: 46.58  E-value: 4.15e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20129311    8 PIKDIKPGLKNINVIFIVLEVGVATV--TKENRE--VRNFKVGDPTACINVSIWDEPGKLIAP---GDIVRLTKGYASIW 80
Cdd:PRK12366  65 KISDIEEGQINVEITGRIIEISNIKTftRKDGSTgkLANITIADNTGTIRLTLWNDNAKLLKGlkeGDVIKIENARSRKW 144

                         90       100
                 ....*....|....*....|
gi 20129311   81 RHCLTLYSGKNGEVFKIGEY 100
Cdd:PRK12366 145 NNDVELNSGSETRIDKLEKY 164
PRK14699 PRK14699
replication factor A; Provisional
 9-77 1.51e-05

replication factor A; Provisional


Pssm-ID: 173162 [Multi-domain]  Cd Length: 484  Bit Score: 44.61  E-value: 1.51e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 20129311    9 IKDIKPGLKNINVIFIVLEVG-VATVTKENR---EVRNFKVGDPTACINVSIWDEPGKLIAP---GDIVRLTKGYA 77
Cdd:PRK14699 169 IKDIKDGMGDLNLTGKVLEISeIRTFQRKDGtsgKVGNLLLGDETGTLRVTLWDDKTDFLNQieyGDTVELINAYA 244
PRK15491 PRK15491
replication factor A; Provisional
 9-77 1.81e-05

replication factor A; Provisional


Pssm-ID: 185388 [Multi-domain]  Cd Length: 374  Bit Score: 44.49  E-value: 1.81e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 20129311    9 IKDIKPGLKNINVIFIVLEVG-VATVTKENR---EVRNFKVGDPTACINVSIWDEPGKLIAP---GDIVRLTKGYA 77
Cdd:PRK15491 169 ISDIKDGDSDINIVGKVLDISdVRTFQKKDGsqgRVRNITIGDETGKIRVTLWDGKTDLADKlenGDSVEIINGYA 244
PRK07211 PRK07211
single-stranded DNA binding protein;
9-99 3.75e-05

single-stranded DNA binding protein;


Pssm-ID: 180887 [Multi-domain]  Cd Length: 485  Bit Score: 43.59  E-value: 3.75e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20129311    9 IKDIKPGLKNINVIFIVLEVG-VATVTK----ENReVRNFKVGDPTACINVSIWDEPGKL---IAPGDIVRLTKGYASIW 80
Cdd:PRK07211 164 VEDLSLGLSDVTLVGVVLDTDsVRTFDRddgsEGR-VSNLTVGDETGRVRVTLWDDRADLaeeLDAGESVEIVDGYVRER 242

                         90
                 ....*....|....*....
gi 20129311   81 RHCLTLYSGKNGEVFKIGE 99
Cdd:PRK07211 243 DGSLELHVGDRGAVEEVDE 261
PRK14699 PRK14699
replication factor A; Provisional
 2-59 6.89e-05

replication factor A; Provisional


Pssm-ID: 173162 [Multi-domain]  Cd Length: 484  Bit Score: 42.68  E-value: 6.89e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 20129311    2 YNVECIPIKDIKPGLKNINVIFIVLEVG-VATVTKEN---REVRNFKVGDPTACINVSIWDE 59
Cdd:PRK14699 272 YEEEFTPIEDIKADMNNINISGRVLDISeVRTFEKKDgspGRVGNLLLGDSTGKIRLTLWDE 333
PRK15491 PRK15491
replication factor A; Provisional
 4-69 1.04e-04

replication factor A; Provisional


Pssm-ID: 185388 [Multi-domain]  Cd Length: 374  Bit Score: 42.18  E-value: 1.04e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 20129311    4 VECIPIKDIKPGLKNINviFIVLEVGVATVTKENRE------VRNFKVGDPTACINVSIWDEPGKLIAPGDI 69
Cdd:PRK15491  55 VDTTKIADINESSSNVN--FTAKVVSIFEPKEFNRNdgttgrVGNIIVADETGSIRLTLWDDLADLIKTGDI 124
PRK12366 PRK12366
replication factor A; Reviewed
 2-78 4.15e-04

replication factor A; Reviewed


Pssm-ID: 237078 [Multi-domain]  Cd Length: 637  Bit Score: 40.42  E-value: 4.15e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20129311    2 YNVECIPIKDIKPGLK---NINVIFIVLEV-GVATVTKEN---REVRNFKVGDPTACINVSIWDEPGKL-IAPGDIVRLT 73
Cdd:PRK12366 391 IEEKIYKIKDILNLEEddnDITVIARVVEDyPVNEFERSDgskGKVRNIELADGTGSIRLTLWDDDAEIeIKEGDAIKIL 470


                 ....*
gi 20129311   74 KGYAS 78
Cdd:PRK12366 471 HPYVK 475
PRK07218 PRK07218
Single-stranded DNA binding protein;
9-80 2.79e-03

Single-stranded DNA binding protein;


Pssm-ID: 180890 [Multi-domain]  Cd Length: 423  Bit Score: 38.07  E-value: 2.79e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 20129311    9 IKDIKPGLKNINVIFIVLEVGVATV--TKENREVRNFKVGDPTACINVSIWDEPGklIAPGDIVRLTKGYASIW 80
Cdd:PRK07218  61 IKELSTDDKNVTVTGRVLTIGERSIryQGDDHVIYEGILADETGTISYTAWKDFG--LSPGDTVTIGNAGVREW 132
 
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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