SMTL ID : 4b9b.1 (1 other biounit)

The structure of the omega aminotransferase from Pseudomonas aeruginosa

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.64 Å

Oligo State

homo-tetramer

Ligands

4 x PLP: PYRIDOXAL-5'-PHOSPHATE(Non-covalent)

PLP.1: 14 residues within 4Å: Chain A: S.119, G.120, S.121, Y.153, H.154, G.155, E.226, S.231, D.259, V.261, I.262, K.288 Chain B: Y.326, T.327 15 PLIP interactions: 11 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:E.226, A:V.261 Hydrogen bonds: A:S.119, A:G.120, A:S.121, A:S.231, A:K.288, B:T.327, B:T.327, B:T.327 Water bridges: A:Y.153, A:Y.153, B:Y.328 Salt bridges: A:K.288 pi-Stacking: A:Y.153 PLP.5: 13 residues within 4Å: Chain A: Y.326, T.327 Chain B: S.119, G.120, S.121, Y.153, H.154, G.155, E.226, D.259, V.261, I.262, K.288 12 PLIP interactions: 8 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:E.226, B:V.261 Hydrogen bonds: B:G.120, B:S.121, B:K.288, A:T.327, A:T.327, A:T.327 Water bridges: B:E.226, A:Y.328 Salt bridges: B:K.288 pi-Stacking: B:Y.153 PLP.7: 13 residues within 4Å: Chain C: S.119, G.120, S.121, Y.153, H.154, G.155, E.226, D.259, V.261, I.262, K.288 Chain D: Y.326, T.327 9 PLIP interactions: 6 interactions with chain C, 3 interactions with chain D Hydrophobic interactions: C:E.226, C:V.261 Hydrogen bonds: C:G.120, C:S.121, C:K.288, D:T.327, D:T.327 pi-Stacking: C:Y.153 Water bridges: D:Y.328 PLP.11: 13 residues within 4Å: Chain C: Y.326, T.327 Chain D: S.119, G.120, S.121, Y.153, H.154, G.155, E.226, D.259, V.261, I.262, K.288 10 PLIP interactions: 7 interactions with chain D, 3 interactions with chain C Hydrophobic interactions: D:E.226, D:V.261 Hydrogen bonds: D:G.120, D:S.121, D:K.288, C:T.327, C:T.327 Water bridges: D:E.226, C:Y.328 pi-Stacking: D:Y.153

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: M.190, T.193, A.197, Q.198, T.199 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.198, A:T.199, A:T.199 GOL.4: 5 residues within 4Å: Chain A: K.210, L.211 Chain C: A.150, H.181 Ligands: GOL.10 5 PLIP interactions: 2 interactions with chain C, 3 interactions with chain A Water bridges: C:H.181, C:H.181, A:E.207, A:E.207 Hydrogen bonds: A:K.210 GOL.10: 5 residues within 4Å: Chain A: A.150, H.181 Chain C: K.210, L.211 Ligands: GOL.4 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.181 Water bridges: A:H.181, A:H.181, A:H.184 GOL.12: 5 residues within 4Å: Chain D: M.190, T.193, A.197, Q.198, T.199 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:T.193, D:Q.198, D:T.199, D:T.199

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 4 residues within 4Å: Chain A: F.322, S.323 Chain B: M.172, F.173 Ligand excluded by PLIP CL.6: 4 residues within 4Å: Chain A: M.172, F.173 Chain B: F.322, S.323 Ligand excluded by PLIP CL.8: 4 residues within 4Å: Chain C: F.322, S.323 Chain D: M.172, F.173 Ligand excluded by PLIP CL.13: 4 residues within 4Å: Chain C: M.172, F.173 Chain D: F.322, S.323 Ligand excluded by PLIP

2 x CA: CALCIUM ION(Non-covalent)

CA.9: 2 residues within 4Å: Chain A: D.180 Chain C: D.180 6 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: C:D.180, A:D.180, H2O.16, H2O.16, H2O.16, H2O.28 CA.14: 2 residues within 4Å: Chain B: D.180 Chain D: D.180 6 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D, 4 Ligand-Water interactions Metal complexes: B:D.180, D:D.180, H2O.40, H2O.40, H2O.40, H2O.83

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sayer, C. et al., Structural Studies with Pseudomonas and Chromobacterium [Omega]-Aminotransferases Provide Insights Into Their Differing Substrate Specificity. Acta Crystallogr.,Sect.D (2013)

Release Date

2013-03-27

Peptides

BETA-ALANINE-PYRUVATE TRANSAMINASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

C
E

D
F

BETA-ALANINE-PYRUVATE TRANSAMINASE

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