SMTL ID : 1gm7.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

hetero-1-1-mer

Ligands

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

EDO.1: 5 residues within 4Å: Chain A: L.181, V.182, K.200, F.201, Q.203 Ligand excluded by PLIP EDO.2: 5 residues within 4Å: Chain A: T.150, S.151, E.152, I.153 Chain B: L.127 Ligand excluded by PLIP EDO.3: 6 residues within 4Å: Chain A: P.187, T.188 Chain B: Y.236, A.238, V.264, D.268 Ligand excluded by PLIP EDO.4: 5 residues within 4Å: Chain B: A.241, F.256, L.257, N.388, K.394 Ligand excluded by PLIP EDO.5: 8 residues within 4Å: Chain A: F.146, S.147, D.148, S.149 Chain B: A.69, G.70, F.71, T.176 Ligand excluded by PLIP EDO.6: 6 residues within 4Å: Chain A: L.156, T.208 Chain B: A.79, P.208, V.209, P.210 Ligand excluded by PLIP EDO.7: 4 residues within 4Å: Chain B: L.253, A.255 Ligands: EDO.20, PNN.22 Ligand excluded by PLIP EDO.8: 9 residues within 4Å: Chain A: Y.197, F.201 Chain B: D.73, Y.196, P.197, R.199, L.221, Y.248, P.249 Ligand excluded by PLIP EDO.9: 5 residues within 4Å: Chain B: W.326, D.327, I.329, L.331 Ligands: EDO.11 Ligand excluded by PLIP EDO.10: 5 residues within 4Å: Chain A: Q.37, D.38 Chain B: S.508, F.510, D.518 Ligand excluded by PLIP EDO.11: 5 residues within 4Å: Chain B: R.287, Q.288, R.291, I.329 Ligands: EDO.9 Ligand excluded by PLIP EDO.12: 9 residues within 4Å: Chain A: K.179, L.181 Chain B: D.73, P.205, R.206, P.249, A.250, S.251, D.252 Ligand excluded by PLIP EDO.13: 3 residues within 4Å: Chain B: K.10, E.272, P.275 Ligand excluded by PLIP EDO.14: 2 residues within 4Å: Chain B: Q.273, K.274 Ligand excluded by PLIP EDO.15: 5 residues within 4Å: Chain B: G.375, L.387, N.388, I.389, S.390 Ligand excluded by PLIP EDO.16: 8 residues within 4Å: Chain B: S.290, R.291, Q.292, N.330, W.339, L.387, Y.476, N.478 Ligand excluded by PLIP EDO.17: 6 residues within 4Å: Chain B: R.291, E.475, Q.477, E.529, N.530, F.531 Ligand excluded by PLIP EDO.18: 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 Ligand excluded by PLIP EDO.19: 4 residues within 4Å: Chain B: K.274, Q.281, D.284, V.285 Ligand excluded by PLIP EDO.20: 5 residues within 4Å: Chain B: F.71, R.263, N.388 Ligands: EDO.7, PNN.22 Ligand excluded by PLIP

1 x CA: CALCIUM ION(Non-covalent)

CA.21: 6 residues within 4Å: Chain A: E.152 Chain B: D.73, V.75, D.76, P.205, D.252 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Metal complexes: B:V.75, B:D.76, B:P.205, B:D.252, A:E.152

1 x PNN: PENICILLIN G(Non-covalent)

PNN.22: 14 residues within 4Å: Chain A: M.142, R.145, F.146, S.149 Chain B: S.1, Q.23, F.24, S.67, T.68, A.69, F.71, I.177 Ligands: EDO.7, EDO.20 9 PLIP interactions: 8 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.24, B:F.24, B:A.69, B:F.71, B:I.177, A:F.146 Hydrogen bonds: B:S.1, B:A.69 Water bridges: B:Q.23

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

2001-11-28

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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