SMTL ID : 7nwa.1

CRYSTAL STRUCTURE OF HUMAN CYTOSOLIC BRANCHED-CHAIN AMINOTRANSFERASE (BCAT1) IN COMPLEX WITH PLP AND COMPOUND A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.59 Å

Oligo State

homo-dimer

Ligands

2 x UTT: 2-[[4-chloranyl-2,6-bis(fluoranyl)phenyl]methylamino]-7-oxidanylidene-5-propyl-4H-pyrazolo[1,5-a]pyrimidine-3-carbonitrile(Non-covalent)

UTT.1: 21 residues within 4Å: Chain A: F.52, F.98, Y.164, R.166, Y.196, F.197, V.205, Q.247, V.261, G.262, T.263, M.264, G.335, T.336, A.337, C.338, C.341, V.343 Chain B: L.176, G.177, V.178 16 PLIP interactions: 15 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:F.52, A:F.52, A:F.98, A:V.205, A:V.261, A:A.337 Hydrogen bonds: A:T.263, A:A.337, A:C.338, B:V.178 Water bridges: A:Y.196, A:Y.196, A:T.263, A:T.336, A:T.336 Halogen bonds: A:T.263 UTT.3: 22 residues within 4Å: Chain A: Y.93, L.176, G.177, V.178 Chain B: F.52, F.98, Y.164, R.166, Y.196, F.197, V.205, Q.247, V.261, G.262, T.263, M.264, G.335, T.336, A.337, C.338, C.341, V.343 13 PLIP interactions: 12 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.98, B:V.205, B:A.337 Hydrogen bonds: B:Y.196, B:T.263, B:A.337, B:C.338, A:V.178 Water bridges: B:T.263, B:T.263, B:T.336, B:T.336 Halogen bonds: B:T.263

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

PLP.2: 13 residues within 4Å: Chain A: R.122, R.215, K.225, Y.230, E.260, T.263, N.265, L.289, G.291, V.292, T.293, G.335, T.336 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:K.225, A:Y.230, A:L.289 Hydrogen bonds: A:K.225, A:V.292, A:T.293, A:T.336 Water bridges: A:R.122, A:R.122, A:R.122, A:R.215, A:R.294, A:T.336, A:A.337 Salt bridges: A:R.122, A:K.225 PLP.4: 14 residues within 4Å: Chain B: R.122, R.215, K.225, Y.230, E.260, T.263, M.264, N.265, L.289, G.291, V.292, T.293, G.335, T.336 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:K.225, B:L.289, B:L.289 Hydrogen bonds: B:Y.230, B:V.292, B:T.293, B:T.293, B:T.336 Water bridges: B:R.122, B:R.122, B:R.122, B:R.294, B:T.336 Salt bridges: B:R.122, B:K.225

1 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 1 residues within 4Å: Chain B: D.136 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.136, H2O.14, H2O.19

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gunther, J. et al., BAY-069, a Novel (Trifluoromethyl)pyrimidinedione-Based BCAT1/2 Inhibitor and Chemical Probe. J.Med.Chem. (2022)

Release Date

2022-11-02

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Branched-chain-amino-acid aminotransferase, cytosolic

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