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Conserved domains on  [gi|41055746|ref|NP_956474|]
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recQ-mediated genome instability protein 1 [Danio rerio]

Protein Classification

OB fold domain-containing protein( domain architecture ID 11179258)

oligonucleotide/oligosaccharide (OB) fold domain-containing protein may bind nucleic acids, similar to Schizosaccharomyces pombe RecQ-mediated genome instability protein 1 (RMI), a structure-specific DNA-binding protein with a preference for cruciform structures, that functions together with SGS1 and TOP3 to maintain genome integrity

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
RMI1_N pfam08585
RecQ mediated genome instability protein; RMI1_N is an N-terminal family of eukaryotic ...
13-204 1.94e-66

RecQ mediated genome instability protein; RMI1_N is an N-terminal family of eukaryotic proteins. The domain probably carries an oligo-nucleotide-binding domain or OB-fold, and forms a stable complex with Bloom syndrome protein BLM and DNA topoisomerase 3-alpha.


:

Pssm-ID: 462527  Cd Length: 194  Bit Score: 212.90  E-value: 1.94e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41055746    13 LRSEWHIQVPPAWLDACVNWIkeeadRASIPQSQLNQRVLEQWLLTDLRD--LAHPVLPERISEAQKTVLSNRCCVQMDS 90
Cdd:pfam08585   1 LASRKHIPVSPEWLEACVSFL-----RPNLPLSALAKTVLEQLLASDLREstNPSPVLPANIASQHPIRLPGPVVVQVLD 75
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41055746    91 LLDVSQPAYNQLQ----RIRGTDCSNDQVSAV-TQETQRPWEAKPTRMLMLQLTDGVQNLEGMEYRPIPALNANLPPGTK 165
Cdd:pfam08585  76 IEDIGQSAYSQLEaleaRERGEQTRGREVDEEkKADNSNQWEPKPRRMLKLVLTDGGQKVYAIEYKPIPGLSLKLPPGTK 155
                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 41055746   166 LQLVGPIAVRLGVLLLKAENIKVLGGEVEQLLEIHSQSR 204
Cdd:pfam08585 156 LLLKGNVVVRRGVLLLTPENVKVLGGEVEELDKAWREGR 194
RMI1_C pfam16099
Recq-mediated genome instability protein 1, C-terminal OB-fold; RMI1_C is a C-terminal ...
382-510 1.70e-47

Recq-mediated genome instability protein 1, C-terminal OB-fold; RMI1_C is a C-terminal oligo-nucleotide binding domain of Recq-mediated genome instability proteins. This domain interacts with RMI2-OB folds to make up the RMI core complex. The RMI core interface is crucial for BLM, Bloom syndrome, dissolvasome assembly and may have additional cellular roles as a docking hub for other proteins.


:

Pssm-ID: 465021  Cd Length: 138  Bit Score: 161.28  E-value: 1.70e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41055746   382 MYLCSL-QAGCWPPKSPQV-FRLQAFIVTLVGNLRISGGVWKLGATISDGSGYLDVDLSDNMLSELIGFSAAE---TRVL 456
Cdd:pfam16099   4 TYLKLLlADLTSKPTTITIqFKIKAFIVTLKGFLTSSGGKWSLKAKISDGTAYLDVDLSDEVLTELIGFSVAElkeMLAL 83
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 41055746   457 RKDLARRGEVDSGIQHCQRELVDMCCMMSVQVDLTG-RGVVLSASPISDRECSEM 510
Cdd:pfam16099  84 KKDPALRRKLKKGLKRCQRFLIDLCCLMTIEFNPTSsKPVVLELEDVSSSDLELL 138
 
Name Accession Description Interval E-value
RMI1_N pfam08585
RecQ mediated genome instability protein; RMI1_N is an N-terminal family of eukaryotic ...
13-204 1.94e-66

RecQ mediated genome instability protein; RMI1_N is an N-terminal family of eukaryotic proteins. The domain probably carries an oligo-nucleotide-binding domain or OB-fold, and forms a stable complex with Bloom syndrome protein BLM and DNA topoisomerase 3-alpha.


Pssm-ID: 462527  Cd Length: 194  Bit Score: 212.90  E-value: 1.94e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41055746    13 LRSEWHIQVPPAWLDACVNWIkeeadRASIPQSQLNQRVLEQWLLTDLRD--LAHPVLPERISEAQKTVLSNRCCVQMDS 90
Cdd:pfam08585   1 LASRKHIPVSPEWLEACVSFL-----RPNLPLSALAKTVLEQLLASDLREstNPSPVLPANIASQHPIRLPGPVVVQVLD 75
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41055746    91 LLDVSQPAYNQLQ----RIRGTDCSNDQVSAV-TQETQRPWEAKPTRMLMLQLTDGVQNLEGMEYRPIPALNANLPPGTK 165
Cdd:pfam08585  76 IEDIGQSAYSQLEaleaRERGEQTRGREVDEEkKADNSNQWEPKPRRMLKLVLTDGGQKVYAIEYKPIPGLSLKLPPGTK 155
                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 41055746   166 LQLVGPIAVRLGVLLLKAENIKVLGGEVEQLLEIHSQSR 204
Cdd:pfam08585 156 LLLKGNVVVRRGVLLLTPENVKVLGGEVEELDKAWREGR 194
RMI1_C pfam16099
Recq-mediated genome instability protein 1, C-terminal OB-fold; RMI1_C is a C-terminal ...
382-510 1.70e-47

Recq-mediated genome instability protein 1, C-terminal OB-fold; RMI1_C is a C-terminal oligo-nucleotide binding domain of Recq-mediated genome instability proteins. This domain interacts with RMI2-OB folds to make up the RMI core complex. The RMI core interface is crucial for BLM, Bloom syndrome, dissolvasome assembly and may have additional cellular roles as a docking hub for other proteins.


Pssm-ID: 465021  Cd Length: 138  Bit Score: 161.28  E-value: 1.70e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41055746   382 MYLCSL-QAGCWPPKSPQV-FRLQAFIVTLVGNLRISGGVWKLGATISDGSGYLDVDLSDNMLSELIGFSAAE---TRVL 456
Cdd:pfam16099   4 TYLKLLlADLTSKPTTITIqFKIKAFIVTLKGFLTSSGGKWSLKAKISDGTAYLDVDLSDEVLTELIGFSVAElkeMLAL 83
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 41055746   457 RKDLARRGEVDSGIQHCQRELVDMCCMMSVQVDLTG-RGVVLSASPISDRECSEM 510
Cdd:pfam16099  84 KKDPALRRKLKKGLKRCQRFLIDLCCLMTIEFNPTSsKPVVLELEDVSSSDLELL 138
 
Name Accession Description Interval E-value
RMI1_N pfam08585
RecQ mediated genome instability protein; RMI1_N is an N-terminal family of eukaryotic ...
13-204 1.94e-66

RecQ mediated genome instability protein; RMI1_N is an N-terminal family of eukaryotic proteins. The domain probably carries an oligo-nucleotide-binding domain or OB-fold, and forms a stable complex with Bloom syndrome protein BLM and DNA topoisomerase 3-alpha.


Pssm-ID: 462527  Cd Length: 194  Bit Score: 212.90  E-value: 1.94e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41055746    13 LRSEWHIQVPPAWLDACVNWIkeeadRASIPQSQLNQRVLEQWLLTDLRD--LAHPVLPERISEAQKTVLSNRCCVQMDS 90
Cdd:pfam08585   1 LASRKHIPVSPEWLEACVSFL-----RPNLPLSALAKTVLEQLLASDLREstNPSPVLPANIASQHPIRLPGPVVVQVLD 75
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41055746    91 LLDVSQPAYNQLQ----RIRGTDCSNDQVSAV-TQETQRPWEAKPTRMLMLQLTDGVQNLEGMEYRPIPALNANLPPGTK 165
Cdd:pfam08585  76 IEDIGQSAYSQLEaleaRERGEQTRGREVDEEkKADNSNQWEPKPRRMLKLVLTDGGQKVYAIEYKPIPGLSLKLPPGTK 155
                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 41055746   166 LQLVGPIAVRLGVLLLKAENIKVLGGEVEQLLEIHSQSR 204
Cdd:pfam08585 156 LLLKGNVVVRRGVLLLTPENVKVLGGEVEELDKAWREGR 194
RMI1_C pfam16099
Recq-mediated genome instability protein 1, C-terminal OB-fold; RMI1_C is a C-terminal ...
382-510 1.70e-47

Recq-mediated genome instability protein 1, C-terminal OB-fold; RMI1_C is a C-terminal oligo-nucleotide binding domain of Recq-mediated genome instability proteins. This domain interacts with RMI2-OB folds to make up the RMI core complex. The RMI core interface is crucial for BLM, Bloom syndrome, dissolvasome assembly and may have additional cellular roles as a docking hub for other proteins.


Pssm-ID: 465021  Cd Length: 138  Bit Score: 161.28  E-value: 1.70e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41055746   382 MYLCSL-QAGCWPPKSPQV-FRLQAFIVTLVGNLRISGGVWKLGATISDGSGYLDVDLSDNMLSELIGFSAAE---TRVL 456
Cdd:pfam16099   4 TYLKLLlADLTSKPTTITIqFKIKAFIVTLKGFLTSSGGKWSLKAKISDGTAYLDVDLSDEVLTELIGFSVAElkeMLAL 83
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 41055746   457 RKDLARRGEVDSGIQHCQRELVDMCCMMSVQVDLTG-RGVVLSASPISDRECSEM 510
Cdd:pfam16099  84 KKDPALRRKLKKGLKRCQRFLIDLCCLMTIEFNPTSsKPVVLELEDVSSSDLELL 138
 
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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