SMTL ID : 4cq5.1

Structural Investigations into the Stereochemistry and Activity of a Phenylalanine-2,3-Aminomutase from Taxus chinensis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-tetramer

Ligands

8 x TCA: PHENYLETHYLENECARBOXYLIC ACID(Non-covalent)

TCA.1: 15 residues within 4Å: Chain A: F.106, G.107, L.124, X.195, L.197, L.245, N.249, N.373, F.389, E.473 Chain B: Q.337, Y.340, R.343 Chain C: K.445 Ligands: TCA.2 12 PLIP interactions: 4 interactions with chain B, 7 interactions with chain A, 1 interactions with chain C Hydrogen bonds: B:Q.337, B:Y.340, A:N.249, A:N.373 Water bridges: B:R.343 Salt bridges: B:R.343 Hydrophobic interactions: A:F.106, A:L.124, A:L.197, A:L.197, A:L.245, C:K.445 TCA.2: 13 residues within 4Å: Chain A: G.107, L.124, X.195, L.197, L.245, N.373, F.389, E.473, N.476 Chain B: Q.337, Y.340, R.343 Ligands: TCA.1 9 PLIP interactions: 3 interactions with chain B, 6 interactions with chain A Hydrogen bonds: B:Q.337, A:N.373, A:N.476 Water bridges: B:R.343 Salt bridges: B:R.343 Hydrophobic interactions: A:L.124, A:L.197, A:L.197, A:L.245 TCA.3: 14 residues within 4Å: Chain A: Q.337, Y.340, R.343 Chain B: G.107, L.124, X.195, L.197, L.245, N.249, N.373, F.389, E.473, N.476 Ligands: TCA.4 11 PLIP interactions: 3 interactions with chain A, 8 interactions with chain B Hydrogen bonds: A:Q.337, A:Y.340, B:N.373, B:N.476 Salt bridges: A:R.343 Hydrophobic interactions: B:L.124, B:L.197, B:L.197, B:L.245 Water bridges: B:G.107, B:G.107 TCA.4: 14 residues within 4Å: Chain A: Q.337, Y.340, R.343 Chain B: F.106, G.107, L.124, X.195, L.197, L.245, N.249, N.373, F.389, E.473 Ligands: TCA.3 10 PLIP interactions: 8 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:F.106, B:L.124, B:L.197, B:L.197, B:L.245 Hydrogen bonds: B:N.249, B:N.373, A:Q.337 Water bridges: B:G.107 Salt bridges: A:R.343 TCA.6: 15 residues within 4Å: Chain A: K.445 Chain C: F.106, G.107, L.124, X.195, L.197, N.249, N.373, F.389, E.473, Q.477 Chain D: Q.337, Y.340, R.343 Ligands: TCA.7 10 PLIP interactions: 1 interactions with chain A, 6 interactions with chain C, 3 interactions with chain D Hydrophobic interactions: A:K.445, C:F.106, C:L.124, C:L.197 Hydrogen bonds: C:N.249, C:N.373, D:Q.337 Water bridges: C:G.107, D:Y.340 Salt bridges: D:R.343 TCA.7: 14 residues within 4Å: Chain A: K.445 Chain C: F.106, G.107, L.124, X.195, L.197, L.245, F.389, E.473, N.476 Chain D: Q.337, Y.340, R.343 Ligands: TCA.6 13 PLIP interactions: 1 interactions with chain A, 8 interactions with chain C, 4 interactions with chain D Hydrophobic interactions: A:K.445, C:F.106, C:L.124, C:L.197, C:L.197, C:L.245 Hydrogen bonds: C:N.373, C:N.476, D:Q.337, D:Y.340 Water bridges: C:G.107, D:R.343 Salt bridges: D:R.343 TCA.8: 15 residues within 4Å: Chain B: K.445 Chain C: Q.337, Y.340, R.343 Chain D: F.106, G.107, L.124, X.195, L.197, N.249, N.373, F.389, E.473, Q.477 Ligands: TCA.9 10 PLIP interactions: 7 interactions with chain D, 2 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: D:F.106, D:L.124, D:L.197, D:L.197, B:K.445 Hydrogen bonds: D:N.249, D:N.373, C:Q.337 Water bridges: D:G.107 Salt bridges: C:R.343 TCA.9: 13 residues within 4Å: Chain C: Q.337, Y.340, R.343 Chain D: G.107, L.124, X.195, L.197, L.245, N.373, F.389, E.473, N.476 Ligands: TCA.8 9 PLIP interactions: 6 interactions with chain D, 3 interactions with chain C Hydrophobic interactions: D:L.124, D:L.197, D:L.197, D:L.245 Hydrogen bonds: D:N.373, D:N.476, C:Q.337 Water bridges: C:R.343 Salt bridges: C:R.343

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 8 residues within 4Å: Chain B: D.441, Y.442, G.443, M.659, S.660, A.661, P.667 Chain D: C.127 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.441, B:Y.442 Water bridges: B:Q.665

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

EDO.10: 6 residues within 4Å: Chain B: R.126, C.127 Chain D: D.441, G.443, S.660, A.661 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain B Hydrogen bonds: D:D.441, B:R.126 Water bridges: D:Y.442, D:Y.442

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wybenga, G.G. et al., Structural Investigations Into the Stereochemistry and Activity of a Phenylalanine-2,3-Aminomutase from Taxus Chinensis. Biochemistry (2014)

Release Date

2014-05-07

Peptides

PHENYLALANINE AMINOMUTASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

PHENYLALANINE AMINOMUTASE

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