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Conserved domains on  [gi|1083938317|gb|OGJ55229|]
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hypothetical protein A2880_02830 [Candidatus Peribacteria bacterium RIFCSPHIGHO2_01_FULL_49_38]

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];
27-115 1.84e-13

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


:

Pssm-ID: 440482  Cd Length: 100  Bit Score: 60.91  E-value: 1.84e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1083938317  27 MRDMYRLQRDAKRVKKQLKSVQVEAE--GKYVRVTTNAEQEVLSIDV---IHQSPSHEELCNDIVDCINRCMKKAQAYAA 101
Cdd:COG0718     6 MKQAQKMQEKMQEAQEELAELEVEGEsgGGLVKVTVNGKGEVKSIEIdpsLLDPEDKEMLEDLIVAAVNDALRKAEELAQ 85

                          90
                  ....*....|....
gi 1083938317 102 DKMKDVMGELGLGG 115
Cdd:COG0718    86 EEMGKLTGGLNLPG 99
 
Name Accession Description Interval E-value
YbaB COG0718
DNA-binding nucleoid-associated protein YbaB/EfbC [Transcription];
27-115 1.84e-13

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


Pssm-ID: 440482  Cd Length: 100  Bit Score: 60.91  E-value: 1.84e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1083938317  27 MRDMYRLQRDAKRVKKQLKSVQVEAE--GKYVRVTTNAEQEVLSIDV---IHQSPSHEELCNDIVDCINRCMKKAQAYAA 101
Cdd:COG0718     6 MKQAQKMQEKMQEAQEELAELEVEGEsgGGLVKVTVNGKGEVKSIEIdpsLLDPEDKEMLEDLIVAAVNDALRKAEELAQ 85

                          90
                  ....*....|....
gi 1083938317 102 DKMKDVMGELGLGG 115
Cdd:COG0718    86 EEMGKLTGGLNLPG 99
YbaB_DNA_bd pfam02575
YbaB/EbfC DNA-binding family; This is a family of DNA-binding proteins. Members of this family ...
 32-112 4.14e-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: 52.08  E-value: 4.14e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1083938317  32 RLQRDAKRVKKQLKSVQVEAE--GKYVRVTTNAEQEVLSIDVihqSPS------HEELCNDIVDCINRCMKKAQAYAADK 103
Cdd:pfam02575   5 KMQEKMQEAQEELAEKEVEGTsgGGLVKVTVNGKGEVKSIEI---DPElvdpedVEMLEDLIVAAVNDALRKAEELAEEE 81


                  ....*....
gi 1083938317 104 MKDVMGELG 112
Cdd:pfam02575  82 MGKLTGGLN 90
 
Name Accession Description Interval E-value
YbaB COG0718
DNA-binding nucleoid-associated protein YbaB/EfbC [Transcription];
27-115 1.84e-13

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


Pssm-ID: 440482  Cd Length: 100  Bit Score: 60.91  E-value: 1.84e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1083938317  27 MRDMYRLQRDAKRVKKQLKSVQVEAE--GKYVRVTTNAEQEVLSIDV---IHQSPSHEELCNDIVDCINRCMKKAQAYAA 101
Cdd:COG0718     6 MKQAQKMQEKMQEAQEELAELEVEGEsgGGLVKVTVNGKGEVKSIEIdpsLLDPEDKEMLEDLIVAAVNDALRKAEELAQ 85

                          90
                  ....*....|....
gi 1083938317 102 DKMKDVMGELGLGG 115
Cdd:COG0718    86 EEMGKLTGGLNLPG 99
YbaB_DNA_bd pfam02575
YbaB/EbfC DNA-binding family; This is a family of DNA-binding proteins. Members of this family ...
 32-112 4.14e-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: 52.08  E-value: 4.14e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1083938317  32 RLQRDAKRVKKQLKSVQVEAE--GKYVRVTTNAEQEVLSIDVihqSPS------HEELCNDIVDCINRCMKKAQAYAADK 103
Cdd:pfam02575   5 KMQEKMQEAQEELAEKEVEGTsgGGLVKVTVNGKGEVKSIEI---DPElvdpedVEMLEDLIVAAVNDALRKAEELAEEE 81


                  ....*....
gi 1083938317 104 MKDVMGELG 112
Cdd:pfam02575  82 MGKLTGGLN 90
 
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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