SMTL ID : 4amz.1

PROLYL OLIGOPEPTIDASE FROM PORCINE BRAIN WITH A COVALENTLY BOUND INHIBITOR IC-2

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x 2P4: (5R)-N-benzyl-5-({(2S)-2-[(1R)-1,2-dihydroxyethyl]pyrrolidin-1-yl}carbonyl)cyclopent-1-ene-1-carboxamide(Covalent)

2P4.1: 16 residues within 4Å: Chain A: F.173, M.235, G.254, C.255, Y.473, F.476, S.554, N.555, V.580, I.591, A.594, W.595, Y.599, R.643, V.644, H.680 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:F.173, A:F.476, A:F.476, A:V.580, A:I.591, A:A.594, A:W.595, A:W.595, A:V.644 Hydrogen bonds: A:Y.473, A:Y.473, A:N.555, A:R.643

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 2 residues within 4Å: Chain A: D.446, N.525 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.525, A:N.525 Water bridges: A:R.505 GOL.3: 6 residues within 4Å: Chain A: A.226, E.227, F.228, W.262, I.276, K.281 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.227, A:K.281, A:K.281 GOL.4: 10 residues within 4Å: Chain A: P.568, D.569, F.571, G.572, D.627, I.628, Q.629, Y.630, P.631, N.668 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.569, A:D.627, A:Q.629, A:Y.630, A:N.668 Water bridges: A:Q.629 GOL.5: 3 residues within 4Å: Chain A: E.239, D.291, Y.292 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.239, A:D.291 Water bridges: A:Y.292 GOL.6: 6 residues within 4Å: Chain A: Y.190, P.191, Q.193, T.204, N.205, L.206 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.205, A:L.206

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kaszuba, K. et al., Molecular Dynamics, Crystallography and Mutagenesis Studies on the Substrate Gating Mechanism of Prolyl Oligopeptidase. Biochimie (2012)

Release Date

2012-05-16

Peptides

PROLYL ENDOPEPTIDASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

PROLYL ENDOPEPTIDASE

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