PDB entry 3d8a

View 3d8a on RCSB PDB site
Description: Co-crystal structure of TraM-TraD complex.
Class: DNA binding protein
Keywords: TraM tetramerization domain, TraD C-terminal peptide, protein complex, Conjugation, DNA-binding, ATP-binding, Inner membrane, Membrane, Nucleotide-binding, Transmembrane, DNA BINDING PROTEIN
Deposited on 2008-05-22, released 2008-09-09
The last revision prior to the SCOPe 2.08 freeze date was dated 2017-06-28, with a file datestamp of 2017-06-23.
Experiment type: XRAY
Resolution: 2.55 Å
R-factor: N/A
AEROSPACI score: 0.21 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Relaxosome protein TraM
    Species: Escherichia coli (strain K12) [TaxId:83333]
    Gene: traM, ECOK12F071
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3d8aa_
  • Chain 'B':
    Compound: Relaxosome protein TraM
    Species: Escherichia coli (strain K12) [TaxId:83333]
    Gene: traM, ECOK12F071
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3d8ab_
  • Chain 'C':
    Compound: Relaxosome protein TraM
    Species: Escherichia coli (strain K12) [TaxId:83333]
    Gene: traM, ECOK12F071
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3d8ac_
  • Chain 'D':
    Compound: Relaxosome protein TraM
    Species: Escherichia coli (strain K12) [TaxId:83333]
    Gene: traM, ECOK12F071
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3d8ad_
  • Chain 'E':
    Compound: Relaxosome protein TraM
    Species: Escherichia coli (strain K12) [TaxId:83333]
    Gene: traM, ECOK12F071
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3d8ae_
  • Chain 'F':
    Compound: Relaxosome protein TraM
    Species: Escherichia coli (strain K12) [TaxId:83333]
    Gene: traM, ECOK12F071
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3d8af_
  • Chain 'G':
    Compound: Relaxosome protein TraM
    Species: Escherichia coli (strain K12) [TaxId:83333]
    Gene: traM, ECOK12F071
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3d8ag_
  • Chain 'H':
    Compound: Relaxosome protein TraM
    Species: Escherichia coli (strain K12) [TaxId:83333]
    Gene: traM, ECOK12F071
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d3d8ah_
  • Chain 'S':
    Compound: Protein traD
    Species: Escherichia coli K12 [TaxId:83333]
    Gene: traD, ECOK12F102
    Database cross-references and differences (RAF-indexed):
    • PDB 3D8A (Start-9)
  • Chain 'T':
    Compound: Protein traD
    Species: Escherichia coli K12 [TaxId:83333]
    Gene: traD, ECOK12F102
    Database cross-references and differences (RAF-indexed):
    • PDB 3D8A (Start-9)
  • Chain 'U':
    Compound: Protein traD
    Species: Escherichia coli K12 [TaxId:83333]
    Gene: traD, ECOK12F102
    Database cross-references and differences (RAF-indexed):
    • PDB 3D8A (Start-9)
  • Chain 'V':
    Compound: Protein traD
    Species: Escherichia coli K12 [TaxId:83333]
    Gene: traD, ECOK12F102
    Database cross-references and differences (RAF-indexed):
    • PDB 3D8A (Start-9)
  • Chain 'W':
    Compound: Protein traD
    Species: Escherichia coli K12 [TaxId:83333]
    Gene: traD, ECOK12F102
    Database cross-references and differences (RAF-indexed):
    • PDB 3D8A (Start-9)
  • Chain 'X':
    Compound: Protein traD
    Species: Escherichia coli K12 [TaxId:83333]
    Gene: traD, ECOK12F102
    Database cross-references and differences (RAF-indexed):
    • PDB 3D8A (Start-9)
  • Chain 'Y':
    Compound: Protein traD
    Species: Escherichia coli K12 [TaxId:83333]
    Gene: traD, ECOK12F102
    Database cross-references and differences (RAF-indexed):
    • PDB 3D8A (Start-9)
  • Chain 'Z':
    Compound: Protein traD
    Species: Escherichia coli K12 [TaxId:83333]
    Gene: traD, ECOK12F102
    Database cross-references and differences (RAF-indexed):
    • PDB 3D8A (Start-9)
  • Heterogens: HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >3d8aA (A:)
esafnqtefnklllecvvktqssvakilgieslsphvsgnskfeyanmvedirekvssem
erffpkndde

    Sequence, based on observed residues (ATOM records): (download) 
    >3d8aA (A:)
afnqtefnklllecvvktqssvakilgieslsphvsgnskfeyanmvedirekvssemer
ffp

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >3d8aB (B:)
esafnqtefnklllecvvktqssvakilgieslsphvsgnskfeyanmvedirekvssem
erffpkndde

    Sequence, based on observed residues (ATOM records): (download) 
    >3d8aB (B:)
afnqtefnklllecvvktqssvakilgieslsphvsgnskfeyanmvedirekvssemer
ffp

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >3d8aC (C:)
esafnqtefnklllecvvktqssvakilgieslsphvsgnskfeyanmvedirekvssem
erffpkndde

    Sequence, based on observed residues (ATOM records): (download) 
    >3d8aC (C:)
afnqtefnklllecvvktqssvakilgieslsphvsgnskfeyanmvedirekvssemer
ffp

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >3d8aD (D:)
esafnqtefnklllecvvktqssvakilgieslsphvsgnskfeyanmvedirekvssem
erffpkndde

    Sequence, based on observed residues (ATOM records): (download) 
    >3d8aD (D:)
afnqtefnklllecvvktqssvakilgieslsphvsgnskfeyanmvedirekvssemer
ffp

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >3d8aE (E:)
esafnqtefnklllecvvktqssvakilgieslsphvsgnskfeyanmvedirekvssem
erffpkndde

    Sequence, based on observed residues (ATOM records): (download) 
    >3d8aE (E:)
afnqtefnklllecvvktqssvakilgieslsphvsgnskfeyanmvedirekvssemer
ffp

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >3d8aF (F:)
esafnqtefnklllecvvktqssvakilgieslsphvsgnskfeyanmvedirekvssem
erffpkndde

    Sequence, based on observed residues (ATOM records): (download) 
    >3d8aF (F:)
afnqtefnklllecvvktqssvakilgieslsphvsgnskfeyanmvedirekvssemer
ffp

  • Chain 'G':
    Sequence, based on SEQRES records: (download) 
    >3d8aG (G:)
esafnqtefnklllecvvktqssvakilgieslsphvsgnskfeyanmvedirekvssem
erffpkndde

    Sequence, based on observed residues (ATOM records): (download) 
    >3d8aG (G:)
afnqtefnklllecvvktqssvakilgieslsphvsgnskfeyanmvedirekvssemer
ffp

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >3d8aH (H:)
esafnqtefnklllecvvktqssvakilgieslsphvsgnskfeyanmvedirekvssem
erffpkndde

    Sequence, based on observed residues (ATOM records): (download) 
    >3d8aH (H:)
afnqtefnklllecvvktqssvakilgieslsphvsgnskfeyanmvedirekvssemer
ffp

  • Chain 'S':
    No sequence available.

  • Chain 'T':
    No sequence available.

  • Chain 'U':
    No sequence available.

  • Chain 'V':
    No sequence available.

  • Chain 'W':
    No sequence available.

  • Chain 'X':
    No sequence available.

  • Chain 'Y':
    No sequence available.

  • Chain 'Z':
    No sequence available.