SMTL ID : 4kt2.4 (3 other biounits)

Crystal structure of d-mannonate dehydratase from chromohalobacter salexigens complexed with mg and glycerol

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 8 residues within 4Å: Chain A: G.81, P.82, V.83, T.84 Chain B: G.81, P.82, V.83, T.84 Ligand excluded by PLIP

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: D.213, E.239, D.240, E.265, R.286 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.213, A:E.239, A:E.265, H2O.3, H2O.9, H2O.11 MG.7: 5 residues within 4Å: Chain B: D.213, H.215, E.239, E.265, R.286 6 PLIP interactions: 3 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.213, B:E.239, B:E.265, H2O.22, H2O.22, H2O.22

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 10 residues within 4Å: Chain A: N.39, H.215, E.265, H.315, P.317, D.319, L.392, W.405 Chain B: Y.77, W.78 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.39, A:H.215, A:D.319 Water bridges: A:D.319 GOL.4: 5 residues within 4Å: Chain A: D.348, E.349, A.352, L.381, Y.385 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.385 GOL.8: 9 residues within 4Å: Chain A: Y.77, W.78 Chain B: N.39, H.215, E.265, H.315, P.317, D.319, W.405 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:N.39, B:H.215, B:D.319 Water bridges: B:D.319, A:Y.77

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

SO4.5: 3 residues within 4Å: Chain A: T.129, I.130, H.192 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.130 Water bridges: A:E.131 Salt bridges: A:H.192 SO4.6: 2 residues within 4Å: Chain A: R.17, T.318 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.318 Water bridges: A:R.17, A:R.17, A:N.39, A:D.319 Salt bridges: A:R.17 SO4.9: 3 residues within 4Å: Chain B: T.129, I.130, H.192 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:I.130 Water bridges: B:Q.128, B:E.131, B:H.192 Salt bridges: B:H.192 SO4.10: 3 residues within 4Å: Chain B: R.17, P.173, T.318 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:T.318 Water bridges: B:N.39, B:A.174, B:A.174, B:T.318, B:D.319 Salt bridges: B:R.17

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fedorov, A.A. et al., Crystal structure of d-mannonate dehydratase from chromohalobacter salexigens complexed with mg and glycerol. To be Published

Release Date

2014-05-21

Peptides

D-mannonate dehydratase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

B
H

D-mannonate dehydratase

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