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Conserved domains on  [gi|1039688300|gb|ANN22400|]
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hypothetical protein SD37_41720 [Amycolatopsis orientalis]

Protein Classification

YbaB/EbfC family nucleoid-associated protein( domain architecture ID 10002284)

YbaB/EbfC family nucleoid-associated protein is a DNA-binding protein that may be involved in DNA repair

CATH:  3.30.1310.10
Gene Ontology:  GO:0003677
PubMed:  36296221|19594923
SCOP:  4003186

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YbaB COG0718
DNA-binding nucleoid-associated protein YbaB/EfbC [Transcription];
1-72 1.19e-10

DNA-binding nucleoid-associated protein YbaB/EfbC [Transcription];


:

Pssm-ID: 440482  Cd Length: 100  Bit Score: 54.75  E-value: 1.19e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1039688300   1 MLEALAALSVEASSPDGAVSVSVNTDGVMTRLRVSDAVSRMSPAE-IADAVMRTYQEAQQGSAKRSAELMAPI 72
Cdd:COG0718    19 AQEELAELEVEGESGGGLVKVTVNGKGEVKSIEIDPSLLDPEDKEmLEDLIVAAVNDALRKAEELAQEEMGKL 91
 
Name Accession Description Interval E-value
YbaB COG0718
DNA-binding nucleoid-associated protein YbaB/EfbC [Transcription];
1-72 1.19e-10

DNA-binding nucleoid-associated protein YbaB/EfbC [Transcription];


Pssm-ID: 440482  Cd Length: 100  Bit Score: 54.75  E-value: 1.19e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1039688300   1 MLEALAALSVEASSPDGAVSVSVNTDGVMTRLRVSDAVSRMSPAE-IADAVMRTYQEAQQGSAKRSAELMAPI 72
Cdd:COG0718    19 AQEELAELEVEGESGGGLVKVTVNGKGEVKSIEIDPSLLDPEDKEmLEDLIVAAVNDALRKAEELAQEEMGKL 91
YbaB_DNA_bd pfam02575
YbaB/EbfC DNA-binding family; This is a family of DNA-binding proteins. Members of this family ...
 1-72 5.96e-10

YbaB/EbfC DNA-binding family; This is a family of DNA-binding proteins. Members of this family form homodimers which bind DNA via a tweezer-like structure. The conformation of the DNA is changed when bound to these proteins. In bacteria, these proteins may play a role in DNA replication-recovery following DNA damage.


Pssm-ID: 460599  Cd Length: 90  Bit Score: 52.86  E-value: 5.96e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1039688300   1 MLEALAALSVEASSPDGAVSVSVNTDGVMTRLRVSDAVSRMSPAEI-ADAVMRTYQEAQQGSAKRSAELMAPI 72
Cdd:pfam02575  13 AQEELAEKEVEGTSGGGLVKVTVNGKGEVKSIEIDPELVDPEDVEMlEDLIVAAVNDALRKAEELAEEEMGKL 85
 
Name Accession Description Interval E-value
YbaB COG0718
DNA-binding nucleoid-associated protein YbaB/EfbC [Transcription];
1-72 1.19e-10

DNA-binding nucleoid-associated protein YbaB/EfbC [Transcription];


Pssm-ID: 440482  Cd Length: 100  Bit Score: 54.75  E-value: 1.19e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1039688300   1 MLEALAALSVEASSPDGAVSVSVNTDGVMTRLRVSDAVSRMSPAE-IADAVMRTYQEAQQGSAKRSAELMAPI 72
Cdd:COG0718    19 AQEELAELEVEGESGGGLVKVTVNGKGEVKSIEIDPSLLDPEDKEmLEDLIVAAVNDALRKAEELAQEEMGKL 91
YbaB_DNA_bd pfam02575
YbaB/EbfC DNA-binding family; This is a family of DNA-binding proteins. Members of this family ...
 1-72 5.96e-10

YbaB/EbfC DNA-binding family; This is a family of DNA-binding proteins. Members of this family form homodimers which bind DNA via a tweezer-like structure. The conformation of the DNA is changed when bound to these proteins. In bacteria, these proteins may play a role in DNA replication-recovery following DNA damage.


Pssm-ID: 460599  Cd Length: 90  Bit Score: 52.86  E-value: 5.96e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1039688300   1 MLEALAALSVEASSPDGAVSVSVNTDGVMTRLRVSDAVSRMSPAEI-ADAVMRTYQEAQQGSAKRSAELMAPI 72
Cdd:pfam02575  13 AQEELAEKEVEGTSGGGLVKVTVNGKGEVKSIEIDPELVDPEDVEMlEDLIVAAVNDALRKAEELAEEEMGKL 85
 
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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