SMTL ID : 7y1x.1

Crystal structure of prolyl oligopeptidase from Microbulbifer arenaceous complex with PEG400 and MES

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.67 Å

Oligo State

monomer

Ligands

2 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.1: 10 residues within 4Å: Chain A: F.198, Y.276, Y.482, F.485, S.562, N.563, N.600, W.604, R.648 Ligands: MES.8 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Y.276, A:Y.482, A:S.562, A:N.563, A:R.648 Water bridges: A:S.562, A:S.562, A:N.600 1PE.3: 3 residues within 4Å: Chain A: E.238, P.239, K.242 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.238, A:K.242

7 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.2: 2 residues within 4Å: Chain A: G.289, E.290 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:E.290 MES.4: 6 residues within 4Å: Chain A: E.114, A.152, K.153, R.154, Y.155 Ligands: MES.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.155 Salt bridges: A:E.114 MES.5: 5 residues within 4Å: Chain A: G.102, V.103, E.395, R.492 Ligands: MES.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.103 Salt bridges: A:E.395 MES.6: 9 residues within 4Å: Chain A: L.303, E.317, T.318, N.319, G.325, L.351, Q.352, N.486, S.516 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.319 Water bridges: A:Q.352, A:N.486, A:G.520 Salt bridges: A:E.317 MES.7: 5 residues within 4Å: Chain A: W.120, D.121, K.146, D.147, W.688 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:D.121 MES.8: 5 residues within 4Å: Chain A: Y.482, R.561, S.562, H.681 Ligands: 1PE.1 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.482, A:S.562 Salt bridges: A:R.561, A:H.681 MES.9: 2 residues within 4Å: Chain A: T.69, D.73 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:D.73

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.10: 4 residues within 4Å: Chain A: F.217, K.218, E.219, G.221 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.219

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.11: 5 residues within 4Å: Chain A: R.492, F.493, Y.494, T.495, R.496 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.495, A:T.495, A:R.496 Salt bridges: A:R.492, A:R.496

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, P. et al., Crystal structure of prolyl oligopeptidase from Microbulbifer arenaceous complex with PEG400 and MES. To Be Published

Release Date

2023-07-05

Peptides

prolyl oligopeptidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

prolyl oligopeptidase

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