SMTL ID : 4chi.1

(R)-selective amine transaminase from Aspergillus fumigatus at 1.27 A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.27 Å

Oligo State

homo-dimer

Ligands

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

PLP.1: 16 residues within 4Å: Chain A: Y.58, R.77, K.179, L.186, E.212, G.215, F.216, N.217, L.234, G.236, I.237, T.238, T.273, T.274 Ligands: PO4.2, NA.4 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:K.179, A:L.186, A:L.234 Hydrogen bonds: A:E.212, A:I.237, A:T.238, A:T.238, A:T.273, A:T.273, A:T.274 Water bridges: A:H.74, A:F.216, A:N.217, A:R.239, A:T.274, A:A.275 Salt bridges: A:R.77, A:K.179 PLP.9: 16 residues within 4Å: Chain B: Y.58, H.74, R.77, K.179, E.212, G.215, F.216, N.217, L.234, G.236, I.237, T.238, T.273, T.274 Ligands: PO4.10, NA.12 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:K.179, B:L.234 Hydrogen bonds: B:Y.58, B:I.237, B:T.238, B:T.274, B:T.274 Water bridges: B:R.77, B:N.180, B:F.216, B:R.239, B:A.275 Salt bridges: B:R.77, B:K.179

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 9 residues within 4Å: Chain A: H.74, R.77, L.234, G.236, I.237, T.238, T.273, T.274 Ligands: PLP.1 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:I.237, A:T.238, A:T.238, A:T.273, A:T.274 Water bridges: A:D.59, A:R.77, A:N.217, A:R.239, A:C.272, A:A.275 Salt bridges: A:R.77, A:K.179 PO4.10: 8 residues within 4Å: Chain B: R.77, L.234, G.236, I.237, T.238, T.273, T.274 Ligands: PLP.9 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:I.237, B:T.238, B:T.274, B:T.274 Water bridges: B:R.77, B:R.239 Salt bridges: B:R.77, B:K.179

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 7 residues within 4Å: Chain A: K.84, M.85, R.86, R.120 Chain B: T.187, K.188, F.191 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Water bridges: B:K.188, A:D.55, A:D.55 Hydrogen bonds: A:R.86 GOL.11: 7 residues within 4Å: Chain A: T.187, K.188, F.191 Chain B: K.84, M.85, R.86, R.120 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.86 Water bridges: A:K.188

2 x NA: SODIUM ION(Non-functional Binders)

NA.4: 5 residues within 4Å: Chain A: Y.58, K.179, N.180, W.183 Ligands: PLP.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.179 Water bridges: A:Y.58, A:N.180 NA.12: 5 residues within 4Å: Chain B: Y.58, K.179, N.180, W.183 Ligands: PLP.9 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.58, B:W.183 Water bridges: B:N.180

4 x K: POTASSIUM ION(Non-covalent)

K.5: 5 residues within 4Å: Chain A: T.57, I.78, C.82, V.118 Ligands: CL.7 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:I.78, A:C.82 K.6: 5 residues within 4Å: Chain A: C.82, D.83, L.87, K.88, F.89 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:L.87, H2O.8, H2O.12, H2O.20, H2O.20 K.13: 5 residues within 4Å: Chain B: T.57, I.78, C.82, V.118 Ligands: CL.15 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:I.78, B:C.82 K.14: 5 residues within 4Å: Chain B: C.82, D.83, L.87, K.88, F.89 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.83, B:L.87, H2O.29, H2O.39, H2O.40

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

CL.7: 7 residues within 4Å: Chain A: T.57, Y.58, D.59, I.78, V.116, V.118 Ligands: K.5 Ligand excluded by PLIP CL.8: 6 residues within 4Å: Chain A: D.59, I.61, H.74, L.75, I.78, V.116 Ligand excluded by PLIP CL.15: 7 residues within 4Å: Chain B: T.57, Y.58, D.59, I.78, V.116, V.118 Ligands: K.13 Ligand excluded by PLIP CL.16: 4 residues within 4Å: Chain B: D.59, H.74, L.75, I.78 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thomsen, M. et al., Crystallographic Characterization of the (R)-Selective Amine Transaminase from Aspergillus Fumigatus. Acta Crystallogr.,Sect.D (2014)

Release Date

2014-04-30

Peptides

BRANCHED-CHAIN AMINO ACID AMINOTRANSFERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

BRANCHED-CHAIN AMINO ACID AMINOTRANSFERASE

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