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Conserved domains on  [gi|2502435892|ref|WP_281775718|]
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helix-hairpin-helix domain-containing protein [Bifidobacterium ruminantium]

Protein Classification

ComEA family DNA-binding protein( domain architecture ID 11446237)

ComEA family DNA-binding protein contains a helix-hairpin-helix (HhH) motif, similar to Bacillus subtilis ComE operon protein 1, an integral membrane protein required for both DNA binding and transport

Gene Ontology:  GO:0003677
PubMed:  10908318|8692686
SCOP:  4001398

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
ComEA COG1555
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair]; ...
 180-247 5.38e-28

DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair];


:

Pssm-ID: 441164 [Multi-domain]  Cd Length: 72  Bit Score: 101.86  E-value: 5.38e-28
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2502435892 180 AEPTQPQSNQIDINTAGLEELQTLKGVGPVTAQRILDYRARIGRFDSIDQLLEVKGIGAKTLAKFREQ 247
Cdd:COG1555     3 ASASAAAGGKVDINTATAEELQTLPGIGPKLAQRIVEYREKNGPFKSVEDLLEVKGIGPKTLEKLKPY 70
 
Name Accession Description Interval E-value
ComEA COG1555
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair]; ...
 180-247 5.38e-28

DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair];


Pssm-ID: 441164 [Multi-domain]  Cd Length: 72  Bit Score: 101.86  E-value: 5.38e-28
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2502435892 180 AEPTQPQSNQIDINTAGLEELQTLKGVGPVTAQRILDYRARIGRFDSIDQLLEVKGIGAKTLAKFREQ 247
Cdd:COG1555     3 ASASAAAGGKVDINTATAEELQTLPGIGPKLAQRIVEYREKNGPFKSVEDLLEVKGIGPKTLEKLKPY 70
HHH_3 pfam12836
Helix-hairpin-helix motif; The HhH domain is a short DNA-binding domain.
 187-243 1.42e-20

Helix-hairpin-helix motif; The HhH domain is a short DNA-binding domain.


Pssm-ID: 463723 [Multi-domain]  Cd Length: 62  Bit Score: 82.14  E-value: 1.42e-20
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2502435892 187 SNQIDINTAGLEELQTLKGVGPVTAQRILDYRARIGRFDSIDQLLEVKGIGAKTLAK 243
Cdd:pfam12836   1 AVGVDINTASAELLSRVPGLGPKLAKNIVEYREENGPFRSREDLLKVKGLGPKTFEQ 57
comE TIGR01259
comEA protein; This model describes the ComEA protein in bacteria. The com E locus is ...
 190-250 6.44e-18

comEA protein; This model describes the ComEA protein in bacteria. The com E locus is obligatory for bacterial cell competence - the process of internalizing the exogenous added DNA. Lesions in the loci has been variously described for the appearance of competence-related pheonotypes and impairment of competence, suggesting their intimate functional role in bacterial transformation. [Cellular processes, DNA transformation]


Pssm-ID: 213597 [Multi-domain]  Cd Length: 120  Bit Score: 76.87  E-value: 6.44e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2502435892 190 IDINTAGLEELQTLKGVGPVTAQRILDYRARIGRFDSIDQLLEVKGIGAKTLAKFREQACV 250
Cdd:TIGR01259  60 VNINAASLEELQALPGIGPAKAKAIIEYREENGAFKSVDDLTKVSGIGEKSLEKLKDYATV 120
PRK13766 PRK13766
Hef nuclease; Provisional
 197-246 5.66e-05

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 44.09  E-value: 5.66e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2502435892 197 LEELQ-----TLKGVGPVTAQRILDYrarigrFDSI--------DQLLEVKGIGAKTLAKFRE 246
Cdd:PRK13766  709 LKEQQeyiveSLPDVGPVLARNLLEH------FGSVeavmtaseEELMEVEGIGEKTAKRIRE 765
 
Name Accession Description Interval E-value
ComEA COG1555
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair]; ...
 180-247 5.38e-28

DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair];


Pssm-ID: 441164 [Multi-domain]  Cd Length: 72  Bit Score: 101.86  E-value: 5.38e-28
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2502435892 180 AEPTQPQSNQIDINTAGLEELQTLKGVGPVTAQRILDYRARIGRFDSIDQLLEVKGIGAKTLAKFREQ 247
Cdd:COG1555     3 ASASAAAGGKVDINTATAEELQTLPGIGPKLAQRIVEYREKNGPFKSVEDLLEVKGIGPKTLEKLKPY 70
HHH_3 pfam12836
Helix-hairpin-helix motif; The HhH domain is a short DNA-binding domain.
 187-243 1.42e-20

Helix-hairpin-helix motif; The HhH domain is a short DNA-binding domain.


Pssm-ID: 463723 [Multi-domain]  Cd Length: 62  Bit Score: 82.14  E-value: 1.42e-20
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2502435892 187 SNQIDINTAGLEELQTLKGVGPVTAQRILDYRARIGRFDSIDQLLEVKGIGAKTLAK 243
Cdd:pfam12836   1 AVGVDINTASAELLSRVPGLGPKLAKNIVEYREENGPFRSREDLLKVKGLGPKTFEQ 57
comE TIGR01259
comEA protein; This model describes the ComEA protein in bacteria. The com E locus is ...
 190-250 6.44e-18

comEA protein; This model describes the ComEA protein in bacteria. The com E locus is obligatory for bacterial cell competence - the process of internalizing the exogenous added DNA. Lesions in the loci has been variously described for the appearance of competence-related pheonotypes and impairment of competence, suggesting their intimate functional role in bacterial transformation. [Cellular processes, DNA transformation]


Pssm-ID: 213597 [Multi-domain]  Cd Length: 120  Bit Score: 76.87  E-value: 6.44e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2502435892 190 IDINTAGLEELQTLKGVGPVTAQRILDYRARIGRFDSIDQLLEVKGIGAKTLAKFREQACV 250
Cdd:TIGR01259  60 VNINAASLEELQALPGIGPAKAKAIIEYREENGAFKSVDDLTKVSGIGEKSLEKLKDYATV 120
TIGR00426 TIGR00426
competence protein ComEA helix-hairpin-helix repeat region; Members of the subfamily ...
 190-245 2.56e-12

competence protein ComEA helix-hairpin-helix repeat region; Members of the subfamily recognized by this model include competence protein ComEA and closely related proteins from a number of species that exhibit competence for transformation by exongenous DNA, including Streptococcus pneumoniae, Bacillus subtilis, Neisseria meningitidis, and Haemophilus influenzae. This model represents a region of two tandem copies of a helix-hairpin-helix domain (pfam00633), each about 30 residues in length. Limited sequence similarity can be found among some members of this family N-terminal to the region covered by this model. [Cellular processes, DNA transformation]


Pssm-ID: 129520 [Multi-domain]  Cd Length: 69  Bit Score: 60.71  E-value: 2.56e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2502435892 190 IDINTAGLEELQ-TLKGVGPVTAQRILDYRARIGRFDSIDQLLEVKGIGAKTLAKFR 245
Cdd:TIGR00426   8 VNINTATAEELQrAMNGVGLKKAEAIVSYREEYGPFKTVEDLKQVPGIGNSLVEKNL 64
Tex COG2183
Transcriptional accessory protein Tex/SPT6 [Transcription];
191-248 2.32e-08

Transcriptional accessory protein Tex/SPT6 [Transcription];


Pssm-ID: 441786 [Multi-domain]  Cd Length: 719  Bit Score: 54.26  E-value: 2.32e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2502435892 191 DINTAGLEELQTLKGVGPVTAQRILDYRARIGRFDSIDQLLEVKGIGAKTlakFrEQA 248
Cdd:COG2183   488 DLNTASAPLLSYVSGLNPTLAKNIVAYRDENGAFKSRKELLKVPRLGPKA---F-EQA 541
HHH pfam00633
Helix-hairpin-helix motif; The helix-hairpin-helix DNA-binding motif is found to be duplicated ...
 191-217 3.76e-06

Helix-hairpin-helix motif; The helix-hairpin-helix DNA-binding motif is found to be duplicated in the central domain of RuvA. The HhH domain of DisA, a bacterial checkpoint control protein, is a DNA-binding domain.


Pssm-ID: 425789 [Multi-domain]  Cd Length: 30  Bit Score: 42.40  E-value: 3.76e-06
                          10        20
                  ....*....|....*....|....*..
gi 2502435892 191 DINTAGLEELQTLKGVGPVTAQRILDY 217
Cdd:pfam00633   4 GLIPASVEELLALPGVGPKTAEAILSY 30
HHH_5 pfam14520
Helix-hairpin-helix domain;
198-248 1.19e-05

Helix-hairpin-helix domain;


Pssm-ID: 434010 [Multi-domain]  Cd Length: 57  Bit Score: 41.70  E-value: 1.19e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2502435892 198 EELQTLKGVGPVTAQRILDyrARIGRFD-----SIDQLLEVKGIGAKTLAKFREQA 248
Cdd:pfam14520   2 EELLSISGIGPKTALALLS--AGIGTVEdlaeaDVDELAEIPGIGEKTAQRIILEL 55
PRK13766 PRK13766
Hef nuclease; Provisional
 197-246 5.66e-05

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 44.09  E-value: 5.66e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2502435892 197 LEELQ-----TLKGVGPVTAQRILDYrarigrFDSI--------DQLLEVKGIGAKTLAKFRE 246
Cdd:PRK13766  709 LKEQQeyiveSLPDVGPVLARNLLEH------FGSVeavmtaseEELMEVEGIGEKTAKRIRE 765
HHH_2 pfam12826
Helix-hairpin-helix motif; The HhH domain of DisA, a bacterial checkpoint control protein, is ...
 195-217 6.62e-03

Helix-hairpin-helix motif; The HhH domain of DisA, a bacterial checkpoint control protein, is a DNA-binding domain.


Pssm-ID: 432812 [Multi-domain]  Cd Length: 64  Bit Score: 34.42  E-value: 6.62e-03
                          10        20
                  ....*....|....*....|...
gi 2502435892 195 AGLEELQTLKGVGPVTAQRILDY 217
Cdd:pfam12826  32 ASLEELLEVDDIGPEIAQSIVEF 54
 
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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