SMTL ID : 8tf1.1

Crystal Structure of Pyridoxal Reductase (PDXI)in complex with NADPH and Pyridoxal

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

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

NAP.1: 24 residues within 4Å: Chain A: G.39, A.40, M.41, Q.42, D.74, Y.79, K.104, R.146, S.182, Q.202, F.229, F.230, P.231, M.255, I.272, P.273, G.274, T.275, S.276, H.280, E.283, N.284 Ligands: UEG.2, MG.3 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:A.40, A:M.41, A:Q.42, A:D.74, A:R.146, A:S.182, A:Q.202, A:F.230, A:G.274, A:T.275, A:S.276, A:E.283, A:E.283, A:N.284 Water bridges: A:Q.42, A:T.253, A:S.276 Salt bridges: A:H.280 pi-Stacking: A:F.229, A:H.280

1 x UEG: 4,5-bis(hydroxymethyl)-2-methyl-pyridin-3-ol(Non-covalent)

UEG.2: 6 residues within 4Å: Chain A: F.78, Y.79, K.104, W.115, R.146 Ligands: NAP.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.79, A:Y.79 pi-Stacking: A:W.115

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain A: M.41, Q.42, G.274 Ligands: NAP.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Donkor, A.K. et al., Characterization of the Escherichia coli vitamin B6 salvage enzyme, pyridoxal reductase (PDXI). To be published

Release Date

2024-12-18

Peptides

Pyridoxine 4-dehydrogenase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Pyridoxine 4-dehydrogenase

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