SMTL ID : 2y0o.1

The structure of a D-lyxose isomerase from the sigmaB regulon of Bacillus subtilis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.23 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.69, H.71, E.82, H.137 Ligands: ARS.4 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.69, A:H.71, A:E.82, A:H.137, H2O.11, H2O.11 ZN.5: 5 residues within 4Å: Chain B: H.69, H.71, E.82, H.137 Ligands: ARS.8 6 PLIP interactions: 4 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.69, B:H.71, B:E.82, B:H.137, H2O.21, H2O.21

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

SO4.2: 4 residues within 4Å: Chain A: K.90, Y.92, G.142, E.143 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.92, A:E.143 Water bridges: A:E.143, A:E.144 Salt bridges: A:K.90 SO4.3: 3 residues within 4Å: Chain A: T.50, D.51 Chain B: Q.81 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Q.81, A:D.51, A:D.51 SO4.6: 4 residues within 4Å: Chain B: K.90, Y.92, G.142, E.143 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.143 Water bridges: B:E.144 Salt bridges: B:K.90 SO4.7: 3 residues within 4Å: Chain A: Q.81 Chain B: T.50, D.51 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:D.51, B:D.51, A:Q.81

2 x ARS: ARSENIC(Non-covalent)

ARS.4: 3 residues within 4Å: Chain A: K.80, E.150 Ligands: ZN.1 No protein-ligand interaction detected (PLIP) ARS.8: 3 residues within 4Å: Chain B: K.80, E.150 Ligands: ZN.5 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Marles-Wright, J. et al., The Structure of a D-Lyxose Isomerase from the Sigmab Regulon of Bacillus Subtilis. Proteins (2011)

Release Date

2011-05-25

Peptides

PROBABLE D-LYXOSE KETOL-ISOMERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

PROBABLE D-LYXOSE KETOL-ISOMERASE