SMTL ID : 6hnv.1

Crystal structure of aminotransferase Aro9 from C. Albicans with ligands

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

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

PLP.1: 16 residues within 4Å: Chain A: G.165, A.166, S.167, F.191, I.247, N.252, D.280, P.282, Y.283, T.338, S.340, K.341, R.348 Chain B: Y.130 Ligands: UN1.7, OOG.10 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:I.247, A:N.252, A:P.282, A:K.341 Hydrogen bonds: A:A.166, A:S.167, A:S.167, A:N.252, A:Y.283, A:T.338, A:S.340, A:S.340 Water bridges: A:D.168 Salt bridges: A:R.348 pi-Stacking: A:F.191 PLP.6: 16 residues within 4Å: Chain A: Y.130 Chain B: G.165, A.166, S.167, F.191, N.252, D.280, P.282, Y.283, T.338, S.340, K.341, R.348, F.438 Ligands: PHE.4, PPY.5 15 PLIP interactions: 1 interactions with chain A, 1 Ligand-Ligand interactions, 13 interactions with chain B Hydrogen bonds: A:Y.130, B:A.166, B:S.167, B:N.252, B:Y.283, B:Y.283, B:S.340, B:K.341 Hydrophobic interactions: F.4, B:F.191, B:N.252, B:P.282, B:K.341 Salt bridges: B:R.348 pi-Stacking: B:F.191

3 x BCN: BICINE(Non-covalent)

BCN.2: 3 residues within 4Å: Chain A: Y.423, D.429, D.432 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.429, A:D.432 BCN.8: 4 residues within 4Å: Chain A: P.29 Chain B: Q.453, L.457, E.522 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.522 Salt bridges: B:E.522 BCN.9: 5 residues within 4Å: Chain B: F.212, D.213, N.214, D.429, K.442 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:N.214, B:D.429, B:D.429, B:K.442 Water bridges: B:F.212 Salt bridges: B:K.442

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

MPD.3: 2 residues within 4Å: Chain A: H.6, D.274 No protein-ligand interaction detected (PLIP)

1 x PHE: PHENYLALANINE(Non-covalent)

PHE.4: 6 residues within 4Å: Chain A: Y.130, A.131, R.371 Chain B: F.191 Ligands: PPY.5, PLP.6 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Water bridges: A:A.131 Salt bridges: A:R.371, B:R.348 pi-Stacking: A:Y.130 Hydrophobic interactions: B:F.191

1 x PPY: 3-PHENYLPYRUVIC ACID(Non-covalent)

PPY.5: 6 residues within 4Å: Chain A: Y.130, R.371 Chain B: S.167, R.348 Ligands: PHE.4, PLP.6 14 PLIP interactions: 4 interactions with chain A, 7 Ligand-Ligand interactions, 3 interactions with chain B Hydrogen bonds: A:R.371, F.4, B:S.167, B:R.348 Water bridges: A:A.131 Salt bridges: A:R.371, B:R.348 pi-Stacking: A:Y.130 Hydrophobic interactions: F.4, F.4, F.4, F.4, F.4, F.4

1 x UN1: 2-AMINOHEXANEDIOIC ACID(Non-covalent)

UN1.7: 7 residues within 4Å: Chain A: S.167, R.348 Chain B: Y.43, Y.130, R.371 Ligands: PLP.1, OOG.10 11 PLIP interactions: 5 interactions with chain A, 6 interactions with chain B Hydrogen bonds: A:S.167, A:S.167, A:R.348, A:R.348, B:R.371, B:R.371 Salt bridges: A:R.348, B:R.371 Hydrophobic interactions: B:Y.130 Water bridges: B:G.44, B:A.131

1 x OOG: 2-OXOADIPIC ACID(Non-covalent)

OOG.10: 7 residues within 4Å: Chain A: F.191 Chain B: G.44, Y.130, A.131, R.371 Ligands: PLP.1, UN1.7 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Y.130 Water bridges: B:A.131, A:K.341, A:K.341 Salt bridges: B:R.371

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kiliszek, A. et al., Crystal structures of aminotransferases Aro8 and Aro9 from Candida albicans and structural insights into their properties. J.Struct.Biol. (2019)

Release Date

2019-02-20

Peptides

Aromatic-amino-acid:2-oxoglutarate transaminase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Aromatic-amino-acid:2-oxoglutarate transaminase