SMTL ID : 6to1.1

Crystal structure of three N-terminal domains of the type V pili tip protein Mfa5 from Porphyromonas gingivalis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: S.135, S.137, T.207 Ligands: PO4.2 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.135, A:S.137, A:T.207, H2O.3, H2O.7

3 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 8 residues within 4Å: Chain A: S.135, S.136, S.137, W.205, G.206, T.207, T.239 Ligands: MG.1 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.136, A:S.136, A:S.137, A:S.137, A:G.206, A:T.239 Water bridges: A:T.239 PO4.3: 5 residues within 4Å: Chain A: D.367, A.369, N.372, N.373, K.376 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.372, A:N.373, A:N.373 Water bridges: A:N.373 Salt bridges: A:K.376 PO4.4: 4 residues within 4Å: Chain A: Q.548, A.549, H.561, V.562 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.549 Water bridges: A:V.562 Salt bridges: A:H.561

1 x CA: CALCIUM ION(Non-covalent)

CA.5: 6 residues within 4Å: Chain A: N.280, N.281, T.284, L.286, T.287, D.319 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:N.281, A:T.284, A:T.284, A:L.286, A:D.319

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Heidler, T.V. et al., Porphyromonas gingivalis fimbrial protein Mfa5 contains a von Willebrand factor domain and an intramolecular isopeptide. Commun Biol (2021)

Release Date

2020-12-02

Peptides

Minor fimbrium subunit Mfa5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Minor fimbrium subunit Mfa5