SMTL ID : 2gms.1

E coli GDP-4-keto-6-deoxy-D-mannose-3-dehydratase with bound hydrated PLP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: E.377, D.380 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.377

2 x P0P: [4-(DIHYDROXYMETHYL)-5-HYDROXY-6-METHYLPYRIDIN-3-YL]METHYL DIHYDROGEN PHOSPHATE(Non-covalent)

P0P.2: 17 residues within 4Å: Chain A: S.57, G.58, S.59, N.62, S.89, W.90, T.92, T.93, D.161, C.163, E.164, S.185, F.187, H.190, G.197 Chain B: H.217, N.250 14 PLIP interactions: 2 interactions with chain B, 12 interactions with chain A Hydrogen bonds: B:N.250, A:G.58, A:S.59, A:S.59, A:N.62, A:W.90, A:E.164, A:S.185, A:S.185 Salt bridges: B:H.217, A:H.190 Hydrophobic interactions: A:W.90 Water bridges: A:R.333, A:R.333 P0P.3: 17 residues within 4Å: Chain A: H.217, N.250 Chain B: S.57, G.58, S.59, N.62, S.89, W.90, T.92, T.93, D.161, C.163, E.164, S.185, F.187, H.190, G.197 14 PLIP interactions: 12 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:W.90, B:W.90 Hydrogen bonds: B:G.58, B:S.59, B:S.59, B:N.62, B:W.90, B:E.164, B:E.164, B:S.185, B:S.185, A:N.250 Salt bridges: B:H.190, A:H.217

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cook, P.D. et al., The structure of GDP-4-keto-6-deoxy-D-mannose-3-dehydratase: a unique coenzyme B6-dependent enzyme. Protein Sci. (2006)

Release Date

2006-09-05

Peptides

Putative pyridoxamine 5-phosphate-dependent dehydrase, Wbdk: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Putative pyridoxamine 5-phosphate-dependent dehydrase, Wbdk

Related Entries With Identical Sequence