SMTL ID : 5mpr.1

Single Amino Acid Variant of Human Mitochondrial Branched Chain Amino Acid Aminotransferase 2

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

2 x PLP: PYRIDOXAL-5'-PHOSPHATE(Covalent)

PLP.1: 15 residues within 4Å: Chain A: R.100, R.193, K.203, Y.208, E.238, T.241, M.242, N.243, L.267, G.269, V.270, V.271, G.313, T.314 Ligands: EDO.5 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:K.203, A:L.267, A:L.267 Hydrogen bonds: A:Y.208, A:V.270, A:V.271, A:T.314 Water bridges: A:R.100, A:N.243, A:R.272, A:T.314, A:T.314, A:T.314 Salt bridges: A:R.100, A:K.203 PLP.7: 15 residues within 4Å: Chain B: R.100, R.193, K.203, Y.208, E.238, T.241, M.242, N.243, L.267, G.269, V.270, V.271, G.313, T.314 Ligands: EDO.11 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:K.203, B:L.267, B:L.267 Hydrogen bonds: B:K.203, B:Y.208, B:Y.208, B:V.270, B:V.271, B:T.314, B:T.314 Water bridges: B:R.100, B:R.100, B:R.100, B:R.100, B:N.243, B:R.272 Salt bridges: B:R.100, B:K.203

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

EDO.2: 5 residues within 4Å: Chain A: Y.247, R.307, E.341, L.342, R.345 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.307, A:R.345 Water bridges: A:Y.247 EDO.3: 4 residues within 4Å: Chain A: D.277, M.278, T.281, H.360 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.277, A:T.281, A:H.360 EDO.4: 5 residues within 4Å: Chain A: E.43, R.53, L.60, T.61, L.163 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.43, A:R.53, A:T.61 EDO.5: 6 residues within 4Å: Chain A: F.76, Y.142, R.144, K.203 Chain B: Y.71 Ligands: PLP.1 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:Y.71, A:R.144, A:K.203 Water bridges: A:Y.142 EDO.6: 5 residues within 4Å: Chain A: T.16, K.18, H.20, D.37, F.57 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.37, A:D.37, A:F.57 Water bridges: A:T.16, A:T.16 EDO.8: 5 residues within 4Å: Chain B: Y.247, R.307, E.341, L.342, R.345 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.247, B:R.307, B:R.345 EDO.9: 4 residues within 4Å: Chain B: D.277, M.278, T.281, H.360 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.277, B:H.360 EDO.10: 5 residues within 4Å: Chain B: E.43, R.53, L.60, T.61, L.163 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.43, B:R.53, B:T.61 EDO.11: 6 residues within 4Å: Chain A: Y.71 Chain B: F.76, Y.142, R.144, K.203 Ligands: PLP.7 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.144, B:K.203, B:K.203 EDO.12: 5 residues within 4Å: Chain B: T.16, K.18, H.20, D.37, F.57 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.16, B:D.37, B:F.57 Water bridges: B:T.16

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Anderson, L.C. et al., Intact Protein Analysis at 21 Tesla and X-Ray Crystallography Define Structural Differences in Single Amino Acid Variants of Human Mitochondrial Branched-Chain Amino Acid Aminotransferase 2 (BCAT2). J. Am. Soc. Mass Spectrom. (2017)

Release Date

2017-07-19

Peptides

Branched-chain-amino-acid aminotransferase, mitochondrial: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Branched-chain-amino-acid aminotransferase, mitochondrial