SMTL ID : 4jy3.1 (1 other biounit)

Crystal structure of 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase, 5-pyridoxic acid bound form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.77 Å

Oligo State

monomer

Ligands

1 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 29 residues within 4Å: Chain A: G.18, G.19, G.20, F.21, A.22, H.40, E.41, K.42, S.43, I.53, Y.54, R.106, S.128, E.129, A.130, A.155, D.156, G.157, L.179, R.181, G.287, D.288, P.295, A.298, Q.299, G.300, A.301, G.302 Ligands: 5PR.3 37 PLIP interactions: 37 interactions with chain A Hydrophobic interactions: A:L.179, A:P.295 Hydrogen bonds: A:G.19, A:G.19, A:A.22, A:K.42, A:K.42, A:Y.54, A:Y.54, A:R.106, A:R.106, A:E.129, A:A.130, A:A.130, A:D.288, A:G.300, A:A.301, A:G.302 Water bridges: A:G.20, A:F.21, A:F.21, A:F.21, A:G.23, A:S.43, A:S.43, A:D.156, A:D.156, A:G.157, A:V.158, A:R.181, A:R.181, A:D.288, A:D.288, A:D.288, A:A.289, A:Q.299 pi-Cation interactions: A:R.106

1 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.2: 5 residues within 4Å: Chain A: W.173, Y.270, T.272, C.294, A.347 No protein-ligand interaction detected (PLIP)

1 x 5PR: 5-hydroxy-4-(hydroxymethyl)-6-methylpyridine-3-carboxylic acid(Non-covalent)

5PR.3: 12 residues within 4Å: Chain A: Y.54, L.179, R.211, L.213, Y.223, M.227, Y.270, P.295, A.296, A.298, L.352 Ligands: FAD.1 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:Y.54, A:L.213, A:A.298 Hydrogen bonds: A:Y.223, A:Y.223, A:Y.270 Water bridges: A:R.211, A:A.296, A:A.296 Salt bridges: A:R.211

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 2 residues within 4Å: Chain A: N.97, P.378 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.97 Water bridges: A:N.97, A:N.97 GOL.5: 4 residues within 4Å: Chain A: E.94, T.95, F.96, N.97 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:K.93, A:T.95, A:F.96, A:N.97, A:N.97 Water bridges: A:G.98, A:N.356 GOL.6: 5 residues within 4Å: Chain A: K.42, N.127, E.129, Q.142, T.143 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.42, A:E.129 Water bridges: A:T.143 GOL.7: 3 residues within 4Å: Chain A: E.364, R.367, Y.375 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.364, A:R.367 Water bridges: A:R.367

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kobayashi, J. et al., Crystal structure of 2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase. To be Published

Release Date

2014-04-02

Peptides

2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase

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