SMTL ID : 6r7w.1

Tannerella forsythia mature mirolysin in complex with a cleaved peptide.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

hetero-1-1-mer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: W.182, D.185, S.188, Q.201, G.202 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:W.182, A:D.185, A:S.188, A:G.202, H2O.1 CA.2: 3 residues within 4Å: Chain A: D.193, I.195, T.198 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.193, A:I.195, A:T.198, H2O.6, H2O.10

1 x ZN: ZINC ION(Non-covalent)

ZN.3: 5 residues within 4Å: Chain A: H.170, H.174, H.180, Y.232 Ligands: CIT.6 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.170, A:H.174, A:H.180

2 x EOH: ETHANOL(Non-functional Binders)

EOH.4: 2 residues within 4Å: Chain A: T.90, F.91 1 PLIP interactions: 1 interactions with chain A Water bridges: A:M.93 EOH.5: 2 residues within 4Å: Chain A: D.155, K.164 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.164, A:K.164

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.6: 13 residues within 4Å: Chain A: M.93, L.126, G.128, Y.129, A.130, H.170, E.171, H.174, H.180, Y.232 Chain B: K.1, R.2 Ligands: ZN.3 11 PLIP interactions: 4 interactions with chain B, 7 interactions with chain A Hydrogen bonds: B:K.1, A:A.130 Water bridges: B:R.2, B:R.2, A:A.130, A:H.180 Salt bridges: B:R.2, A:H.170, A:H.174, A:H.174, A:H.180

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guevara, T. et al., Structure-based mechanism of cysteine-switch latency and of catalysis by pappalysin-family metallopeptidases. Iucrj (2020)

Release Date

2019-11-13

Peptides

Mirolysin: A
Putative lipoprotein: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Mirolysin

Putative lipoprotein

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