SMTL ID : 1k4p.1

Crystal Structure of 3,4-dihydroxy-2-butanone 4-phosphate synthase in complex with zinc ions

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.00 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 8 residues within 4Å: Chain A: R.36, E.37, T.92, R.150, G.152, H.153, T.154 Ligands: ZN.4 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:H.153, A:T.154, A:T.154 Water bridges: A:T.92, A:T.92 Salt bridges: A:R.36, A:R.150 SO4.2: 2 residues within 4Å: Chain A: Q.81, R.141 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.141 SO4.8: 8 residues within 4Å: Chain B: R.36, E.37, T.92, R.150, G.152, H.153, T.154 Ligands: ZN.11 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:H.153, B:T.154, B:T.154 Water bridges: B:T.92, B:T.92 Salt bridges: B:R.36, B:R.150 SO4.9: 2 residues within 4Å: Chain B: Q.81, R.141 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.141

10 x ZN: ZINC ION(Non-covalent)

ZN.3: 2 residues within 4Å: Chain A: E.181, E.183 6 PLIP interactions: 2 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:E.181, A:E.183, H2O.60, H2O.61, H2O.62, H2O.84 ZN.4: 5 residues within 4Å: Chain A: E.37, H.153 Ligands: SO4.1, ZN.5, ZN.6 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.37, A:H.153, H2O.17, H2O.212 ZN.5: 4 residues within 4Å: Chain A: D.41, I.172, E.174 Ligands: ZN.4 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.41, A:E.174, H2O.104, H2O.212 ZN.6: 4 residues within 4Å: Chain A: E.37, E.174 Ligands: ZN.4, ZN.7 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.37, H2O.66, H2O.167, H2O.280 ZN.7: 4 residues within 4Å: Chain A: Y.94, E.174 Chain B: H.136 Ligands: ZN.6 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.136, H2O.280, H2O.366 ZN.10: 2 residues within 4Å: Chain B: E.181, E.183 6 PLIP interactions: 2 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:E.181, B:E.183, H2O.272, H2O.273, H2O.274, H2O.296 ZN.11: 5 residues within 4Å: Chain B: E.37, H.153 Ligands: SO4.8, ZN.12, ZN.13 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.37, B:H.153, H2O.229, H2O.424 ZN.12: 4 residues within 4Å: Chain B: D.41, I.172, E.174 Ligands: ZN.11 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.41, B:E.174, H2O.316, H2O.424 ZN.13: 4 residues within 4Å: Chain B: E.37, E.174 Ligands: ZN.11, ZN.14 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:E.37, H2O.68, H2O.278, H2O.379 ZN.14: 4 residues within 4Å: Chain A: H.136 Chain B: Y.94, E.174 Ligands: ZN.13 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.136, H2O.68, H2O.154

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liao, D.I. et al., Structural definition of the active site and catalytic mechanism of 3,4-dihydroxy-2-butanone-4-phosphate synthase. Biochemistry (2002)

Release Date

2002-03-06

Peptides

3,4-Dihydroxy-2-Butanone 4-Phosphate Synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

3,4-Dihydroxy-2-Butanone 4-Phosphate Synthase

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