SMTL ID : 3pyx.1

Crystals Structure of Aspartate beta-Semialdehyde Dehydrogenase complex with NADP and 2-aminoterephthalate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

2 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.1: 27 residues within 4Å: Chain A: G.9, A.10, T.11, G.12, A.13, V.14, A.36, S.37, R.39, S.40, T.57, S.71, A.72, G.73, S.74, T.76, N.94, T.95, C.128, S.158, G.159, G.161, M.162, N.325, L.326, G.329, A.330 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:V.14, A:A.330 Hydrogen bonds: A:G.9, A:T.11, A:T.11, A:T.11, A:G.12, A:A.13, A:V.14, A:S.37, A:S.37, A:S.37, A:S.40, A:S.40, A:G.73, A:S.74, A:S.158, A:M.162, A:N.325 Water bridges: A:G.15, A:R.39, A:T.57, A:K.79, A:Y.80 Salt bridges: A:R.39 NAP.7: 28 residues within 4Å: Chain B: G.9, A.10, T.11, G.12, A.13, V.14, A.36, S.37, R.39, S.40, T.57, S.71, A.72, G.73, S.74, T.76, N.94, T.95, C.128, S.158, G.159, G.161, M.162, N.325, L.326, G.329, A.330 Ligands: 12T.11 24 PLIP interactions: 24 interactions with chain B Hydrophobic interactions: B:V.14, B:A.330 Hydrogen bonds: B:G.9, B:T.11, B:T.11, B:T.11, B:G.12, B:A.13, B:V.14, B:S.37, B:S.37, B:S.37, B:R.39, B:S.40, B:S.40, B:G.73, B:S.74, B:T.76, B:S.158, B:M.162, B:N.325 Water bridges: B:G.15, B:T.57 Salt bridges: B:R.39

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

NA.2: 5 residues within 4Å: Chain A: I.273, A.274, A.275, F.276, A.279 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.273, A:A.279 Water bridges: A:L.281

7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 4 residues within 4Å: Chain A: E.24, S.25, W.332, E.339 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.24 Water bridges: A:E.339 EDO.4: 7 residues within 4Å: Chain A: Q.17, S.250, V.297, G.298, D.324, L.326, L.327 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.250, A:G.298 EDO.5: 4 residues within 4Å: Chain A: L.311, D.312 Chain B: T.225, K.229 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.229 EDO.6: 2 residues within 4Å: Chain A: N.295, F.303 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.295 EDO.8: 4 residues within 4Å: Chain B: E.24, S.25, W.332, E.339 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.24 Water bridges: B:E.339, B:E.339 EDO.9: 6 residues within 4Å: Chain B: Q.17, S.250, V.297, G.298, D.324, L.326 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.250, B:G.298 EDO.10: 2 residues within 4Å: Chain B: N.295, F.303 2 PLIP interactions: 2 interactions with chain B Water bridges: B:E.282, B:N.295

1 x 12T: 2-aminobenzene-1,4-dicarboxylic acid(Non-covalent)

12T.11: 12 residues within 4Å: Chain B: N.94, R.99, N.127, C.128, G.159, A.160, I.209, D.210, E.220, K.223, R.245 Ligands: NAP.7 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:N.127, B:D.210 Water bridges: B:S.96, B:R.245, B:R.245, B:R.245 Salt bridges: B:R.99, B:K.223, B:R.245

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pavlovsky, A.G. et al., Structural Characterization of Inhibitors with Selectivity against Members of a Homologous Enzyme Family. Chem.Biol.Drug Des. (2012)

Release Date

2012-01-04

Peptides

Aspartate-semialdehyde dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Aspartate-semialdehyde dehydrogenase

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