SMTL ID : 2vhl.1 (1 other biounit)

The Three-dimensional structure of the N-Acetylglucosamine-6- phosphate deacetylase from Bacillus subtilis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-dimer

Ligands

2 x GLP: 2-amino-2-deoxy-6-O-phosphono-alpha-D-glucopyranose(Non-covalent)

GLP.1: 15 residues within 4Å: Chain A: A.145, G.146, A.147, H.202, Y.225, N.226, A.227, H.258, D.281, T.313, L.314, G.316 Chain B: H.233, R.234 Ligands: FE.4 15 PLIP interactions: 10 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:A.147, A:Y.225, A:N.226, A:A.227, A:D.281, A:G.316, A:G.316 Water bridges: A:M.228, B:R.234, B:R.234, B:R.234 Salt bridges: A:H.223, A:H.258, B:H.233, B:R.234 GLP.5: 15 residues within 4Å: Chain A: H.233, R.234 Chain B: A.145, G.146, A.147, H.202, Y.225, N.226, A.227, H.258, D.281, T.313, L.314, G.316 Ligands: FE.8 15 PLIP interactions: 10 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:A.147, B:Y.225, B:N.226, B:A.227, B:D.281, B:G.316, B:G.316 Water bridges: B:M.228, A:R.234, A:R.234, A:R.234 Salt bridges: B:H.223, B:H.258, A:H.233, A:R.234

2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.2: 7 residues within 4Å: Chain A: K.265, F.331, T.332, N.333 Chain B: A.244, H.245, D.246 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:N.333, B:D.246, B:D.246 Water bridges: A:T.332 PGE.6: 7 residues within 4Å: Chain A: A.244, H.245, D.246 Chain B: K.265, F.331, T.332, N.333 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:D.246, A:D.246, B:N.333 Water bridges: B:T.332

4 x FE: FE (III) ION(Non-covalent)

FE.3: 5 residues within 4Å: Chain A: H.63, H.65, E.136, D.281 Ligands: FE.4 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.63, A:H.65, A:E.136, A:D.281, H2O.13 FE.4: 6 residues within 4Å: Chain A: E.136, Q.148, H.202, H.223 Ligands: GLP.1, FE.3 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.136, A:H.202, A:H.223, H2O.13 FE.7: 5 residues within 4Å: Chain B: H.63, H.65, E.136, D.281 Ligands: FE.8 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.63, B:H.65, B:E.136, B:D.281, H2O.25 FE.8: 6 residues within 4Å: Chain B: E.136, Q.148, H.202, H.223 Ligands: GLP.5, FE.7 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.136, B:H.202, B:H.223, H2O.25

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vincent, F. et al., The Three-Dimensional Structure of the N-Acetylglucosamine-6-Phosphate Deacetylase from Bacillus Subtilis. J.Biol.Chem. (2004)

Release Date

2007-12-04

Peptides

N-ACETYLGLUCOSAMINE-6-PHOSPHATE DEACETYLASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

N-ACETYLGLUCOSAMINE-6-PHOSPHATE DEACETYLASE

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