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Conserved domains on  [gi|1853384872|ref|WP_174419012|]
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MULTISPECIES: helix-hairpin-helix domain-containing protein [Burkholderia cepacia complex]

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]; ...
 24-76 4.96e-17

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


:

Pssm-ID: 441164 [Multi-domain]  Cd Length: 72  Bit Score: 72.20  E-value: 4.96e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1853384872  24 VEVNTADQATLESVKGLGPVKSKAIIDERTKNGPFKDADDLAnRVKGLGTKSV 76
Cdd:COG1555    13 VDINTATAEELQTLPGIGPKLAQRIVEYREKNGPFKSVEDLL-EVKGIGPKTL 64
 
Name Accession Description Interval E-value
ComEA COG1555
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair]; ...
 24-76 4.96e-17

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


Pssm-ID: 441164 [Multi-domain]  Cd Length: 72  Bit Score: 72.20  E-value: 4.96e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1853384872  24 VEVNTADQATLESVKGLGPVKSKAIIDERTKNGPFKDADDLAnRVKGLGTKSV 76
Cdd:COG1555    13 VDINTATAEELQTLPGIGPKLAQRIVEYREKNGPFKSVEDLL-EVKGIGPKTL 64
HHH_3 pfam12836
Helix-hairpin-helix motif; The HhH domain is a short DNA-binding domain.
 24-74 8.98e-13

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


Pssm-ID: 463723 [Multi-domain]  Cd Length: 62  Bit Score: 60.57  E-value: 8.98e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1853384872  24 VEVNTADQATLESVKGLGPVKSKAIIDERTKNGPFKDADDLAnRVKGLGTK 74
Cdd:pfam12836   4 VDINTASAELLSRVPGLGPKLAKNIVEYREENGPFRSREDLL-KVKGLGPK 53
TIGR00426 TIGR00426
competence protein ComEA helix-hairpin-helix repeat region; Members of the subfamily ...
 24-76 2.11e-05

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: 41.07  E-value: 2.11e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1853384872  24 VEVNTADQATLE-SVKGLGPVKSKAIIDERTKNGPFKDADDLAnRVKGLGTKSV 76
Cdd:TIGR00426   8 VNINTATAEELQrAMNGVGLKKAEAIVSYREEYGPFKTVEDLK-QVPGIGNSLV 60
dnaE PRK07135
DNA polymerase III DnaE; Validated
 37-74 1.81e-04

DNA polymerase III DnaE; Validated


Pssm-ID: 235944 [Multi-domain]  Cd Length: 973  Bit Score: 41.60  E-value: 1.81e-04
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1853384872  37 VKGLGPVKSKAIIDERTKNGPFKDADDLANRVKGLGTK 74
Cdd:PRK07135  758 IKGLGSVAIKKIIDERNKNGKYKNFFDFILRLKFIGIS 795
 
Name Accession Description Interval E-value
ComEA COG1555
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair]; ...
 24-76 4.96e-17

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


Pssm-ID: 441164 [Multi-domain]  Cd Length: 72  Bit Score: 72.20  E-value: 4.96e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1853384872  24 VEVNTADQATLESVKGLGPVKSKAIIDERTKNGPFKDADDLAnRVKGLGTKSV 76
Cdd:COG1555    13 VDINTATAEELQTLPGIGPKLAQRIVEYREKNGPFKSVEDLL-EVKGIGPKTL 64
HHH_3 pfam12836
Helix-hairpin-helix motif; The HhH domain is a short DNA-binding domain.
 24-74 8.98e-13

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


Pssm-ID: 463723 [Multi-domain]  Cd Length: 62  Bit Score: 60.57  E-value: 8.98e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1853384872  24 VEVNTADQATLESVKGLGPVKSKAIIDERTKNGPFKDADDLAnRVKGLGTK 74
Cdd:pfam12836   4 VDINTASAELLSRVPGLGPKLAKNIVEYREENGPFRSREDLL-KVKGLGPK 53
Tex COG2183
Transcriptional accessory protein Tex/SPT6 [Transcription];
24-74 2.45e-06

Transcriptional accessory protein Tex/SPT6 [Transcription];


Pssm-ID: 441786 [Multi-domain]  Cd Length: 719  Bit Score: 47.33  E-value: 2.45e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1853384872  24 VEVNTADQATLESVKGLGPVKSKAIIDERTKNGPFKDADDLANrVKGLGTK 74
Cdd:COG2183   487 VDLNTASAPLLSYVSGLNPTLAKNIVAYRDENGAFKSRKELLK-VPRLGPK 536
HHH_6 pfam14579
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain.
 34-76 7.41e-06

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


Pssm-ID: 434050 [Multi-domain]  Cd Length: 88  Bit Score: 42.84  E-value: 7.41e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1853384872  34 LESVKGLGPVKSKAIIDERtKNGPFKDADDLANRVKGLGTKSV 76
Cdd:pfam14579  27 LGAIKGLGEAAAERIVEER-ENGPFKSLEDFARRVDLKLNKRV 68
DnaE COG0587
DNA polymerase III, alpha subunit [Replication, recombination and repair];
34-68 1.46e-05

DNA polymerase III, alpha subunit [Replication, recombination and repair];


Pssm-ID: 440352 [Multi-domain]  Cd Length: 1050  Bit Score: 45.06  E-value: 1.46e-05
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 1853384872   34 LESVKGLGPVKSKAIIDERTKNGPFKDADDLANRV 68
Cdd:COG0587    817 LGAIKGVGEAAAEAIVAAREENGPFTSLFDFCRRV 851
TIGR00426 TIGR00426
competence protein ComEA helix-hairpin-helix repeat region; Members of the subfamily ...
 24-76 2.11e-05

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: 41.07  E-value: 2.11e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1853384872  24 VEVNTADQATLE-SVKGLGPVKSKAIIDERTKNGPFKDADDLAnRVKGLGTKSV 76
Cdd:TIGR00426   8 VNINTATAEELQrAMNGVGLKKAEAIVSYREEYGPFKTVEDLK-QVPGIGNSLV 60
COG1491 COG1491
Predicted nucleic acid-binding OB-fold protein [General function prediction only];
34-71 3.14e-05

Predicted nucleic acid-binding OB-fold protein [General function prediction only];


Pssm-ID: 441100  Cd Length: 189  Bit Score: 42.86  E-value: 3.14e-05
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1853384872  34 LESVKGLGPVKSKAIIDERtKNGPFKDADDLANRVKGL 71
Cdd:COG1491   126 LELLPGIGKKLMWAILEER-KKKPFESFEDLEERVKGL 162
dnaE PRK07135
DNA polymerase III DnaE; Validated
 37-74 1.81e-04

DNA polymerase III DnaE; Validated


Pssm-ID: 235944 [Multi-domain]  Cd Length: 973  Bit Score: 41.60  E-value: 1.81e-04
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1853384872  37 VKGLGPVKSKAIIDERTKNGPFKDADDLANRVKGLGTK 74
Cdd:PRK07135  758 IKGLGSVAIKKIIDERNKNGKYKNFFDFILRLKFIGIS 795
dnaE PRK05673
DNA polymerase III subunit alpha; Validated
 34-68 8.53e-04

DNA polymerase III subunit alpha; Validated


Pssm-ID: 235554 [Multi-domain]  Cd Length: 1135  Bit Score: 39.70  E-value: 8.53e-04
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 1853384872   34 LESVKGLG--PVKSkaIIDERTKNGPFKDADDLANRV 68
Cdd:PRK05673   822 LGAIKGVGegAVEA--IVEAREEGGPFKDLFDFCARV 856
dnaE PRK06826
DNA polymerase III DnaE; Reviewed
 39-68 3.43e-03

DNA polymerase III DnaE; Reviewed


Pssm-ID: 235868 [Multi-domain]  Cd Length: 1151  Bit Score: 37.95  E-value: 3.43e-03
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 1853384872   39 GLGPVKS------KAIIDERTKNGPFKDADDLANRV 68
Cdd:PRK06826   825 GLAAVKNvgenaiDSIVEEREKKGKFKSLVDFCERV 860
 
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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