SMTL ID : 1wrv.2 (4 other biounits)

Crystal Structure of T.th.HB8 Branched-Chain Amino Acid Aminotransferase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-hexamer

Ligands

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

CL.1: 6 residues within 4Å: Chain A: R.68 Chain C: D.267, W.268, R.269 Chain F: M.172, E.173 Ligand excluded by PLIP CL.2: 6 residues within 4Å: Chain A: D.267, W.268, R.269 Chain B: R.68 Chain E: M.172, E.173 Ligand excluded by PLIP CL.6: 5 residues within 4Å: Chain B: D.267, R.269 Chain C: R.68 Chain D: M.172, E.173 Ligand excluded by PLIP CL.12: 6 residues within 4Å: Chain C: M.172, E.173 Chain D: R.68 Chain F: D.267, W.268, R.269 Ligand excluded by PLIP CL.13: 6 residues within 4Å: Chain B: M.172, E.173 Chain D: D.267, W.268, R.269 Chain E: R.68 Ligand excluded by PLIP CL.17: 5 residues within 4Å: Chain A: M.172, E.173 Chain E: D.267, R.269 Chain F: R.68 Ligand excluded by PLIP

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

PLP.3: 16 residues within 4Å: Chain A: H.56, R.59, R.148, K.159, Y.164, E.193, S.195, G.196, E.197, L.216, G.218, I.219, T.220, G.255, T.256 Ligands: MPD.4 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:K.159, A:L.216 Hydrogen bonds: A:H.56, A:Y.164, A:Y.164, A:I.219, A:T.220, A:T.256 Water bridges: A:R.221, A:T.256, A:T.256 Salt bridges: A:R.59, A:K.159 PLP.7: 16 residues within 4Å: Chain B: H.56, R.59, R.148, K.159, Y.164, E.193, S.195, G.196, E.197, L.216, G.218, I.219, T.220, G.255, T.256 Ligands: MPD.8 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:K.159, B:L.216 Hydrogen bonds: B:H.56, B:Y.164, B:I.219, B:T.220, B:T.220, B:T.256 Water bridges: B:R.221, B:T.256, B:T.256 Salt bridges: B:R.59, B:K.159 PLP.10: 14 residues within 4Å: Chain C: R.59, R.148, K.159, Y.164, E.193, G.196, E.197, L.216, G.218, I.219, T.220, G.255, T.256 Ligands: MPD.11 14 PLIP interactions: 14 interactions with chain C Hydrophobic interactions: C:K.159, C:L.216 Hydrogen bonds: C:K.159, C:Y.164, C:Y.164, C:I.219, C:T.220, C:T.256, C:T.256 Water bridges: C:E.37, C:R.59, C:R.221 Salt bridges: C:R.59, C:K.159 PLP.14: 16 residues within 4Å: Chain D: H.56, R.59, R.148, K.159, Y.164, E.193, S.195, G.196, E.197, L.216, G.218, I.219, T.220, G.255, T.256 Ligands: MPD.15 14 PLIP interactions: 14 interactions with chain D Hydrophobic interactions: D:K.159, D:L.216 Hydrogen bonds: D:H.56, D:K.159, D:Y.164, D:I.219, D:T.220, D:T.220, D:T.256, D:T.256 Water bridges: D:R.59, D:R.221 Salt bridges: D:R.59, D:K.159 PLP.18: 16 residues within 4Å: Chain E: H.56, R.59, R.148, K.159, Y.164, E.193, S.195, G.196, E.197, L.216, G.218, I.219, T.220, G.255, T.256 Ligands: MPD.19 13 PLIP interactions: 13 interactions with chain E Hydrophobic interactions: E:K.159, E:L.216 Hydrogen bonds: E:H.56, E:Y.164, E:Y.164, E:I.219, E:T.220, E:T.256, E:T.256 Water bridges: E:R.59, E:R.221 Salt bridges: E:R.59, E:K.159 PLP.21: 14 residues within 4Å: Chain F: R.59, R.148, K.159, Y.164, E.193, G.196, E.197, L.216, G.218, I.219, T.220, G.255, T.256 Ligands: MPD.22 12 PLIP interactions: 12 interactions with chain F Hydrophobic interactions: F:K.159, F:L.216 Hydrogen bonds: F:Y.164, F:I.219, F:T.220, F:T.220, F:T.256 Water bridges: F:E.37, F:R.221, F:T.256 Salt bridges: F:R.59, F:K.159

10 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.4: 9 residues within 4Å: Chain A: Y.95, R.97, Y.164, G.196, A.257 Chain F: Y.31, L.107, V.109 Ligands: PLP.3 4 PLIP interactions: 2 interactions with chain F, 2 interactions with chain A Hydrogen bonds: F:L.107, A:S.195 Water bridges: F:V.109 Hydrophobic interactions: A:A.257 MPD.5: 2 residues within 4Å: Chain A: D.230, E.297 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:E.297 Hydrogen bonds: A:E.297, A:E.297 MPD.8: 12 residues within 4Å: Chain B: Y.95, R.97, K.159, Y.164, S.195, G.196, A.257 Chain E: Y.31, L.107, V.109 Ligands: PLP.7, MPD.9 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain E Hydrophobic interactions: B:A.257 Hydrogen bonds: B:S.195, E:Y.31, E:L.107 Water bridges: E:V.109 MPD.9: 6 residues within 4Å: Chain B: Y.95, W.124, E.125, W.126 Chain E: L.107 Ligands: MPD.8 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain E Hydrophobic interactions: B:Y.95, B:W.126 Hydrogen bonds: B:W.124, E:L.107 MPD.11: 11 residues within 4Å: Chain C: Y.95, R.97, K.159, Y.164, S.195, G.196, A.257 Chain D: Y.31, L.107, V.109 Ligands: PLP.10 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain C Hydrogen bonds: D:L.107, C:S.195 Water bridges: D:V.109 Hydrophobic interactions: C:A.257 MPD.15: 9 residues within 4Å: Chain C: Y.31, L.107, V.109 Chain D: Y.95, R.97, Y.164, G.196, A.257 Ligands: PLP.14 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: D:A.257 Hydrogen bonds: D:S.195, C:L.107 Water bridges: C:V.109 MPD.16: 2 residues within 4Å: Chain D: D.230, E.297 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:E.297 Hydrogen bonds: D:E.297 MPD.19: 12 residues within 4Å: Chain B: Y.31, L.107, V.109 Chain E: Y.95, R.97, K.159, Y.164, S.195, G.196, A.257 Ligands: PLP.18, MPD.20 4 PLIP interactions: 2 interactions with chain E, 2 interactions with chain B Hydrophobic interactions: E:A.257 Hydrogen bonds: E:S.195, B:L.107 Water bridges: B:V.109 MPD.20: 6 residues within 4Å: Chain B: L.107 Chain E: Y.95, W.124, E.125, W.126 Ligands: MPD.19 4 PLIP interactions: 3 interactions with chain E, 1 interactions with chain B Hydrophobic interactions: E:Y.95, E:W.126 Hydrogen bonds: E:W.124, B:L.107 MPD.22: 11 residues within 4Å: Chain A: Y.31, L.107, V.109 Chain F: Y.95, R.97, K.159, Y.164, S.195, G.196, A.257 Ligands: PLP.21 4 PLIP interactions: 2 interactions with chain F, 2 interactions with chain A Hydrophobic interactions: F:A.257 Hydrogen bonds: F:S.195, A:L.107 Water bridges: A:V.109

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Goto, M. et al., Crystal Structure of T.th.HB8 Branched-Chain Amino Acid Aminotransferase. TO BE PUBLISHED

Release Date

2005-10-18

Peptides

Branched-Chain Amino Acid Aminotransferase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
A

E
B

F
C

Branched-Chain Amino Acid Aminotransferase

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