SMTL ID : 4nog.1

Crystal structure of a putative ornithine aminotransferase from Toxoplasma gondii ME49 in complex with pyrodoxal-5'-phosphate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.20 Å

Oligo State

homo-dimer

Ligands

2 x PLP: PYRIDOXAL-5'-PHOSPHATE(Non-covalent)

PLP.1: 13 residues within 4Å: Chain A: T.120, G.121, A.122, Y.156, W.157, G.158, E.209, D.242, I.244, Q.245, K.271 Chain B: S.300, T.301 13 PLIP interactions: 9 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:Y.156, A:Q.245 Hydrogen bonds: A:T.120, A:G.121, A:A.122, A:Q.245, A:K.271, B:T.301, B:T.301, B:T.301 Water bridges: A:Y.156, A:E.209, B:F.302 PLP.3: 12 residues within 4Å: Chain A: S.300, T.301 Chain B: T.120, G.121, A.122, Y.156, W.157, E.209, D.242, I.244, Q.245, K.271 13 PLIP interactions: 9 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:Y.156 Hydrogen bonds: B:G.121, B:A.122, B:Q.245, B:K.271, A:T.301, A:T.301, A:T.301 Water bridges: B:T.120, B:T.120, B:Y.156, B:E.209, A:F.302

2 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.2: 4 residues within 4Å: Chain A: C.338, R.341, E.342, T.410 1 PLIP interactions: 1 interactions with chain A Water bridges: A:T.411 BME.7: 4 residues within 4Å: Chain B: Q.334, C.338, R.407, T.410 1 PLIP interactions: 1 interactions with chain B Water bridges: B:R.407

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.4: 2 residues within 4Å: Chain B: R.389, R.391 3 PLIP interactions: 3 interactions with chain B Water bridges: B:R.389 Salt bridges: B:R.389, B:R.391

1 x BTB: 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-covalent)

BTB.5: 7 residues within 4Å: Chain B: M.109, F.110, L.254, L.255, D.258, H.263 Ligands: PEG.6 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:M.109, B:D.258, B:H.263 Water bridges: B:V.262

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.6: 4 residues within 4Å: Chain B: R.253, L.254, D.258 Ligands: BTB.5 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:L.254

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lykins, J.D. et al., CSGID Solves Structures and Identifies Phenotypes for Five Enzymes in Toxoplasma gondii . Front Cell Infect Microbiol (2018)

Release Date

2013-12-04

Peptides

Putative ornithine aminotransferase, mitochondrial: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Putative ornithine aminotransferase, mitochondrial