SMTL ID : 5giq.1

Xaa-Pro peptidase from Deinococcus radiodurans, Zinc bound

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

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

PO4.1: 10 residues within 4Å: Chain A: I.182, D.210, D.221, H.285, H.292, E.314, R.326, E.328 Ligands: ZN.2, ZN.3 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.285, A:H.292 PO4.4: 10 residues within 4Å: Chain B: I.182, D.210, D.221, H.285, H.292, E.314, R.326, E.328 Ligands: ZN.5, ZN.6 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:H.285, B:H.292

4 x ZN: ZINC ION(Non-covalent)

ZN.2: 7 residues within 4Å: Chain A: D.221, H.285, T.312, E.314, E.328 Ligands: PO4.1, ZN.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.221, A:H.285, A:E.314, A:E.328 ZN.3: 8 residues within 4Å: Chain A: F.179, D.210, D.221, M.222, T.223, E.328 Ligands: PO4.1, ZN.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.210, A:D.221, A:E.328 ZN.5: 7 residues within 4Å: Chain B: D.221, H.285, T.312, E.314, E.328 Ligands: PO4.4, ZN.6 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.221, B:H.285, B:E.314, B:E.328 ZN.6: 8 residues within 4Å: Chain B: F.179, D.210, D.221, M.222, T.223, E.328 Ligands: PO4.4, ZN.5 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:D.210, B:D.221, B:E.328

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Are, V.N. et al., Structures and activities of widely conserved small prokaryotic aminopeptidases-P clarify classification of M24B peptidases. Proteins (2018)

Release Date

2017-06-28

Peptides

Proline dipeptidase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Proline dipeptidase

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