SMTL ID : 1gkf.1

Crystal structures of penicillin acylase enzyme-substrate complexes: Structural insights into the catalytic mechanism

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.41 Å

Oligo State

hetero-1-1-mer

Ligands

13 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 5 residues within 4Å: Chain B: A.241, F.256, L.257, N.388, K.394 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:A.241, B:L.257, B:N.388, B:K.394 Water bridges: B:A.255 EDO.2: 7 residues within 4Å: Chain A: L.156, T.208 Chain B: A.79, Y.137, P.208, V.209, P.210 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.137, B:Y.137 EDO.3: 5 residues within 4Å: Chain B: R.287, Q.288, R.291, I.329 Ligands: EDO.4 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.287, B:Q.288, B:R.291 EDO.4: 5 residues within 4Å: Chain B: W.326, D.327, I.329, L.331 Ligands: EDO.3 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:W.326 Water bridges: B:D.327 EDO.5: 8 residues within 4Å: Chain B: A.171, Q.173, A.174, G.194, A.195, L.221, F.223, N.226 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:A.171, B:G.194, B:N.226, B:N.226 Water bridges: B:F.223 EDO.6: 5 residues within 4Å: Chain A: T.189, A.191 Chain B: S.234, Y.236 Ligands: EDO.7 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:S.234, B:Y.236 Water bridges: B:Y.236, A:A.191 EDO.7: 7 residues within 4Å: Chain A: P.187, T.188 Chain B: Y.236, A.238, V.264, D.268 Ligands: EDO.6 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Water bridges: A:T.188, A:T.188, B:A.238 Hydrogen bonds: B:A.238 EDO.8: 5 residues within 4Å: Chain A: Q.37, D.38 Chain B: S.508, F.510, D.518 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.38, A:D.38 EDO.9: 6 residues within 4Å: Chain B: R.291, E.475, Q.477, E.529, N.530, F.531 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.291, B:E.475, B:Q.477, B:N.530 EDO.10: 2 residues within 4Å: Chain B: Q.273, K.274 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.273, B:K.274 EDO.11: 9 residues within 4Å: Chain A: S.195, Y.197, P.198 Chain B: E.224, M.225, N.226, P.227, K.228, Q.245 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:K.228, B:K.228, B:Q.245, A:S.195 EDO.12: 8 residues within 4Å: Chain A: Y.197, F.201 Chain B: D.73, Y.196, R.199, L.221, Y.248, P.249 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:D.73, B:R.199, B:R.199, A:Y.197, A:Y.197 Water bridges: B:D.73 EDO.13: 5 residues within 4Å: Chain B: G.375, L.387, N.388, I.389, S.390 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.375, B:N.388, B:I.389

1 x CA: CALCIUM ION(Non-covalent)

CA.14: 6 residues within 4Å: Chain A: E.152 Chain B: D.73, V.75, D.76, P.205, D.252 5 PLIP interactions: 1 interactions with chain A, 4 interactions with chain B Metal complexes: A:E.152, B:V.75, B:D.76, B:P.205, B:D.252

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mcvey, C.E. et al., Crystal Structures of Penicillin Acylase Enzyme- Substrate Complexes: Structural Insights Into the Catalytic Mechanism. J.Mol.Biol. (2001)

Release Date

2002-01-04

Peptides

PENICILLIN G ACYLASE ALPHA SUBUNIT: A
PENICILLIN G ACYLASE BETA SUBUNIT: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

PENICILLIN G ACYLASE ALPHA SUBUNIT

PENICILLIN G ACYLASE BETA SUBUNIT

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