SMTL ID : 3dap.1

C. GLUTAMICUM DAP DEHYDROGENASE IN COMPLEX WITH NADP+ AND THE INHIBITOR 5S-ISOXAZOLINE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

2 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.1: 21 residues within 4Å: Chain A: G.10, Y.11, G.12, N.13, L.14, S.35, R.36, R.37, C.65, M.66, G.67, S.68, T.88, D.90, T.117, G.118, W.119, D.120, P.121, N.270, T.274 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:T.274 Hydrogen bonds: A:Y.11, A:N.13, A:N.13, A:L.14, A:R.36, A:R.36, A:C.65, A:M.66, A:S.68, A:S.68, A:T.88, A:T.88, A:W.119, A:D.120 Water bridges: A:G.12, A:G.15, A:A.69 Salt bridges: A:R.36, A:R.37 pi-Cation interactions: A:R.37, A:R.37 NDP.2: 26 residues within 4Å: Chain B: G.10, Y.11, G.12, N.13, L.14, S.35, R.36, R.37, C.65, M.66, G.67, S.68, T.88, D.90, T.117, G.118, W.119, D.120, P.121, Q.150, G.151, D.154, R.157, N.270, T.274 Ligands: DA3.3 28 PLIP interactions: 28 interactions with chain B Hydrophobic interactions: B:T.274 Hydrogen bonds: B:Y.11, B:G.12, B:N.13, B:N.13, B:L.14, B:R.36, B:R.36, B:C.65, B:M.66, B:S.68, B:S.68, B:T.88, B:T.88, B:W.119, B:D.120, B:Q.150 Water bridges: B:G.15, B:A.69, B:A.69, B:R.157, B:R.157, B:R.157 Salt bridges: B:R.36, B:R.37, B:R.157 pi-Cation interactions: B:R.37, B:R.37

1 x DA3: (2S,5',S)-2-AMINO-3-(3-CARBOXY-2-ISOXAZOLIN-5-YL)PROPANOIC ACID(Non-covalent)

DA3.3: 13 residues within 4Å: Chain B: D.90, W.119, D.120, W.144, S.149, Q.150, G.151, H.152, T.169, R.195, H.244, N.270 Ligands: NDP.2 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:W.119 Hydrogen bonds: B:D.90, B:Q.150, B:G.151, B:T.169, B:N.270 Water bridges: B:S.149, B:S.149, B:H.152 Salt bridges: B:H.152, B:R.195, B:H.244 pi-Stacking: B:W.119, B:W.144

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Scapin, G. et al., Substrate and inhibitor binding sites in Corynebacterium glutamicum diaminopimelate dehydrogenase. Biochemistry (1998)

Release Date

1998-04-08

Peptides

DIAMINOPIMELIC ACID DEHYDROGENASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

DIAMINOPIMELIC ACID DEHYDROGENASE

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