SMTL ID : 3toz.1 (3 other biounits)

2.2 Angstrom Crystal Structure of Shikimate 5-dehydrogenase from Listeria monocytogenes in Complex with NAD.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 24 residues within 4Å: Chain A: G.161, A.162, G.163, G.164, A.165, N.185, R.186, D.188, F.190, A.233, T.234, G.235, V.236, M.238, F.241, L.246, V.262, V.263, Y.264, G.285, M.288, M.289, Q.292 Ligands: SO4.3 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:V.262 Hydrogen bonds: A:A.162, A:G.163, A:G.163, A:G.164, A:A.165, A:N.185, A:D.188, A:T.234, A:G.235, A:G.285, A:M.289 Water bridges: A:R.186 pi-Cation interactions: A:R.186 NAD.4: 22 residues within 4Å: Chain B: G.161, A.162, G.163, G.164, A.165, N.185, R.186, D.188, F.190, T.234, G.235, V.236, M.238, F.241, L.246, V.262, Y.264, G.285, M.288, M.289, Q.292 Ligands: SO4.5 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:A.162, B:G.163, B:G.164, B:A.165, B:N.185, B:D.188, B:T.234, B:G.235, B:V.262 Water bridges: B:A.166, B:R.186 pi-Cation interactions: B:R.186

5 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 6 residues within 4Å: Chain A: S.97, M.98, P.99, N.100, K.101, T.102 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.97, A:K.101, A:T.102 SO4.3: 7 residues within 4Å: Chain A: V.96, S.97, K.101, N.122, D.137, Q.292 Ligands: NAD.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.122, A:D.137, A:Q.292 Water bridges: A:K.101, A:K.101 Salt bridges: A:K.101 SO4.5: 6 residues within 4Å: Chain B: S.97, M.98, K.101, N.122, Q.292 Ligands: NAD.4 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.97, B:N.122, B:Q.292 Salt bridges: B:K.101 SO4.6: 5 residues within 4Å: Chain B: M.98, P.99, N.100, K.101, T.102 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:P.99, B:K.101, B:T.102 SO4.7: 2 residues within 4Å: Chain B: P.266, T.267 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.267

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Minasov, G. et al., 2.2 Angstrom Crystal Structure of Shikimate 5-dehydrogenase from Listeria monocytogenes in Complex with NAD. TO BE PUBLISHED

Release Date

2011-09-21

Peptides

Shikimate dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Shikimate dehydrogenase

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