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Conserved domains on  [gi|1238239315|gb|PAM75897|]
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hypothetical protein CFD21_21225 [Bacillus subtilis]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 229396)

helix-turn-helix domain-containing protein may bind DNA and be involved in the regulation of gene expression

Gene Ontology:  GO:0003677|GO:0006355

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HTH_ARSR super family cl46857
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 15-88 8.07e-15

Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.


The actual alignment was detected with superfamily member pfam06970:

Pssm-ID: 481197  Cd Length: 76  Bit Score: 68.08  E-value: 8.07e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1238239315  15 FYQVPKVLLIGDKYKTMNPNAMKLYIILIDRIKLSMMNNWKDELGRYYVRLSIEKGSELLGFSDSTFKRAKKEL 88
Cdd:pfam06970   3 FYQLPKVLFEDERYKKLSAEAKVLYAVLLDRLELSIKNGWIDEDGRVYFIFTIEELMELLGCSKQKAIKIKKEL 76
 
Name Accession Description Interval E-value
RepA_N pfam06970
Replication initiator protein A (RepA) N-terminus; This of family of predicted proteins ...
 15-88 8.07e-15

Replication initiator protein A (RepA) N-terminus; This of family of predicted proteins represents the N-terminus (approximately 80 residues) of replication initiator protein A (RepA), a DNA replication initiator in plasmids. Most proteins in this family are bacterial, but archaeal and eukaryotic members are also included.


Pssm-ID: 429221  Cd Length: 76  Bit Score: 68.08  E-value: 8.07e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1238239315  15 FYQVPKVLLIGDKYKTMNPNAMKLYIILIDRIKLSMMNNWKDELGRYYVRLSIEKGSELLGFSDSTFKRAKKEL 88
Cdd:pfam06970   3 FYQLPKVLFEDERYKKLSAEAKVLYAVLLDRLELSIKNGWIDEDGRVYFIFTIEELMELLGCSKQKAIKIKKEL 76
 
Name Accession Description Interval E-value
RepA_N pfam06970
Replication initiator protein A (RepA) N-terminus; This of family of predicted proteins ...
 15-88 8.07e-15

Replication initiator protein A (RepA) N-terminus; This of family of predicted proteins represents the N-terminus (approximately 80 residues) of replication initiator protein A (RepA), a DNA replication initiator in plasmids. Most proteins in this family are bacterial, but archaeal and eukaryotic members are also included.


Pssm-ID: 429221  Cd Length: 76  Bit Score: 68.08  E-value: 8.07e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1238239315  15 FYQVPKVLLIGDKYKTMNPNAMKLYIILIDRIKLSMMNNWKDELGRYYVRLSIEKGSELLGFSDSTFKRAKKEL 88
Cdd:pfam06970   3 FYQLPKVLFEDERYKKLSAEAKVLYAVLLDRLELSIKNGWIDEDGRVYFIFTIEELMELLGCSKQKAIKIKKEL 76
 
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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