SMTL ID : 5cm0.1

Crystal structure of branched-chain aminotransferase from thermophilic archaea Geoglobus acetivorans

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-hexamer

Ligands

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

PLP.1: 17 residues within 4Å: Chain A: H.50, R.53, R.141, K.152, Y.156, N.159, E.185, S.187, G.188, D.189, N.190, L.208, G.210, I.211, T.212, G.247, T.248 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:K.152, A:L.208 Hydrogen bonds: A:Y.156, A:I.211, A:T.212, A:T.212, A:T.248, A:T.248 Water bridges: A:H.50, A:R.53, A:T.212, A:R.213 Salt bridges: A:H.50, A:R.53, A:K.152 PLP.3: 17 residues within 4Å: Chain B: H.50, R.53, R.141, K.152, Y.156, N.159, E.185, S.187, G.188, D.189, N.190, L.208, G.210, I.211, T.212, G.247, T.248 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:K.152, B:L.208 Hydrogen bonds: B:K.152, B:Y.156, B:I.211, B:T.212, B:T.212, B:T.248 Water bridges: B:K.152, B:R.213, B:T.248 Salt bridges: B:H.50, B:R.53, B:K.152 PLP.4: 17 residues within 4Å: Chain C: H.50, R.53, R.141, K.152, Y.156, N.159, E.185, S.187, G.188, D.189, N.190, L.208, G.210, I.211, T.212, G.247, T.248 14 PLIP interactions: 14 interactions with chain C Hydrophobic interactions: C:K.152, C:L.208 Hydrogen bonds: C:Y.156, C:Y.156, C:I.211, C:T.212, C:T.248, C:T.248 Water bridges: C:R.53, C:K.152, C:R.213 Salt bridges: C:H.50, C:R.53, C:K.152 PLP.6: 17 residues within 4Å: Chain D: H.50, R.53, R.141, K.152, Y.156, N.159, E.185, S.187, G.188, D.189, N.190, L.208, G.210, I.211, T.212, G.247, T.248 15 PLIP interactions: 15 interactions with chain D Hydrophobic interactions: D:K.152, D:L.208 Hydrogen bonds: D:K.152, D:Y.156, D:Y.156, D:I.211, D:T.212, D:T.248 Water bridges: D:K.152, D:T.212, D:R.213, D:T.248 Salt bridges: D:H.50, D:R.53, D:K.152 PLP.8: 17 residues within 4Å: Chain E: H.50, R.53, R.141, K.152, Y.156, N.159, E.185, S.187, G.188, D.189, N.190, L.208, G.210, I.211, T.212, G.247, T.248 14 PLIP interactions: 14 interactions with chain E Hydrophobic interactions: E:K.152, E:L.208 Hydrogen bonds: E:Y.156, E:Y.156, E:I.211, E:T.212, E:T.248, E:T.248 Water bridges: E:H.50, E:R.53, E:R.213 Salt bridges: E:H.50, E:R.53, E:K.152 PLP.9: 17 residues within 4Å: Chain F: H.50, R.53, R.141, K.152, Y.156, N.159, E.185, S.187, G.188, D.189, N.190, L.208, G.210, I.211, T.212, G.247, T.248 14 PLIP interactions: 14 interactions with chain F Hydrophobic interactions: F:K.152, F:L.208 Hydrogen bonds: F:K.152, F:Y.156, F:I.211, F:T.212, F:T.212, F:T.248 Water bridges: F:R.213, F:T.248, F:T.248 Salt bridges: F:H.50, F:R.53, F:K.152

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 6 residues within 4Å: Chain A: E.129, K.130, I.252, P.254, P.268, M.276 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.130, A:K.130 GOL.5: 3 residues within 4Å: Chain C: K.130, P.268, M.276 No protein-ligand interaction detected (PLIP) GOL.7: 6 residues within 4Å: Chain D: E.129, K.130, I.252, P.254, P.268, M.276 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:K.130, D:K.130 GOL.10: 3 residues within 4Å: Chain F: K.130, P.268, M.276 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Isupov, M.N. et al., Thermostable Branched-Chain Amino Acid Transaminases From the Archaea Geoglobus acetivorans and Archaeoglobus fulgidus : Biochemical and Structural Characterization. Front Bioeng Biotechnol (2019)

Release Date

2016-09-14

Peptides

Branched-chain transaminase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
A

E
B

F
C

Branched-chain transaminase