SMTL ID : 6ed7.1 (3 other biounits)

Crystal structure of 7,8-diaminopelargonic acid synthase bound to inhibitor MAC13772

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.43 Å

Oligo State

homo-dimer

Ligands

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

PLP.1: 15 residues within 4Å: Chain A: S.111, G.112, S.113, Y.144, H.145, G.146, E.211, D.245, I.247, A.248, K.274 Chain B: G.307, P.308, T.309 Ligands: J4J.2 11 PLIP interactions: 9 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:Y.144 Hydrogen bonds: A:G.112, A:S.113, A:S.113, B:T.309, B:T.309 Water bridges: A:S.111, A:S.113, A:S.113, A:D.147, A:T.282 PLP.4: 14 residues within 4Å: Chain A: P.308, T.309 Chain B: S.111, G.112, S.113, Y.144, H.145, G.146, E.211, D.245, I.247, A.248, K.274 Ligands: J4J.5 13 PLIP interactions: 10 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:Y.144, B:I.247, B:A.248 Hydrogen bonds: B:G.112, B:S.113, B:Y.144, A:T.309, A:T.309 Water bridges: B:S.111, B:S.113, B:S.113, B:D.147, A:F.310

4 x J4J: 2-[(2-nitrophenyl)sulfanyl]acetohydrazide(Non-covalent)

J4J.2: 10 residues within 4Å: Chain A: W.52, W.53, Y.144, A.217, K.274, F.393, Y.398 Chain B: T.309 Ligands: PLP.1, J4J.3 7 PLIP interactions: 4 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:A.217 Hydrogen bonds: A:K.274, B:T.309 pi-Stacking: A:Y.144, A:F.393 Water bridges: B:T.309, B:T.309 J4J.3: 10 residues within 4Å: Chain A: P.16, Y.17, W.52, Y.144, D.147, R.391, F.393 Chain B: G.81, G.307 Ligands: J4J.2 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:W.52 Hydrogen bonds: A:Y.144, A:Y.144, B:G.307, B:G.307 J4J.5: 10 residues within 4Å: Chain A: T.309 Chain B: W.52, W.53, Y.144, A.217, K.274, F.393, Y.398 Ligands: PLP.4, J4J.6 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:A.217 Hydrogen bonds: B:K.274, A:T.309 pi-Stacking: B:Y.144, B:F.393 Water bridges: A:T.309, A:T.309 J4J.6: 9 residues within 4Å: Chain A: G.307 Chain B: P.16, Y.17, W.52, Y.144, D.147, R.391, F.393 Ligands: J4J.5 8 PLIP interactions: 2 interactions with chain A, 6 interactions with chain B Hydrogen bonds: A:G.307, B:P.16, B:Y.17, B:Y.144, B:R.391 Water bridges: A:G.82 Hydrophobic interactions: B:Y.17, B:F.393

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brown, C.M. et al., Crystal structure of 7,8-diaminopelargonic acid synthase bound to inhibitor MAC13772. To Be Published

Release Date

2019-08-21

Peptides

7,8-diamino-pelargonic acid aminotransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

7,8-diamino-pelargonic acid aminotransferase

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