SMTL ID : 5hhy.1

Structure of human Alanine:Glyoxylate Aminotransferase major allele (AGT-Ma) showing X-Ray induced reduction of PLP internal aldimine to 4'-deoxy-piridoxine-phosphate (PLR)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x PLR: (5-HYDROXY-4,6-DIMETHYLPYRIDIN-3-YL)METHYL DIHYDROGEN PHOSPHATE(Non-covalent)

PLR.1: 17 residues within 4Å: Chain A: S.76, G.77, H.78, W.103, T.149, G.151, E.152, S.153, D.178, V.180, A.181, Y.199, Q.203, K.204 Chain B: Y.255, H.257, T.258 18 PLIP interactions: 4 interactions with chain B, 14 interactions with chain A Hydrogen bonds: B:Y.255, B:Y.255, B:T.258, B:T.258, A:S.76, A:G.77, A:H.78, A:S.153, A:Q.203, A:Q.203, A:K.204 Hydrophobic interactions: A:W.103, A:V.180, A:V.180, A:A.181 Salt bridges: A:H.78 pi-Stacking: A:W.103, A:W.103 PLR.2: 17 residues within 4Å: Chain A: Y.255, H.257, T.258 Chain B: S.76, G.77, H.78, W.103, T.149, G.151, E.152, S.153, D.178, V.180, A.181, Y.199, Q.203, K.204 18 PLIP interactions: 14 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:W.103, B:V.180, B:V.180, B:A.181 Hydrogen bonds: B:S.76, B:G.77, B:H.78, B:W.103, B:S.153, B:Q.203, B:K.204, A:Y.255, A:T.258, A:T.258, A:T.258 Salt bridges: B:H.78 pi-Stacking: B:W.103, B:W.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Giardina, G. et al., Radiation damage at the active site of human alanine:glyoxylate aminotransferase reveals that the cofactor position is finely tuned during catalysis. Sci Rep (2017)

Release Date

2017-01-25

Peptides

Serine--pyruvate aminotransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Serine--pyruvate aminotransferase

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