SMTL ID : 6tzp.1

W96F Oxalate Decarboxylase (B. subtilis)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.72 Å

Oligo State

homo-hexamer

Ligands

12 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 4 residues within 4Å: Chain A: H.95, H.97, E.101, H.140 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.95, A:H.97, A:E.101, A:H.140, H2O.3, H2O.4 MN.2: 5 residues within 4Å: Chain A: H.273, H.275, E.280, H.319, E.333 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.273, A:H.275, A:E.280, A:H.319, H2O.2 MN.3: 4 residues within 4Å: Chain B: H.95, H.97, E.101, H.140 6 PLIP interactions: 4 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:H.95, B:H.97, B:E.101, B:H.140, H2O.13, H2O.14 MN.4: 5 residues within 4Å: Chain B: H.273, H.275, E.280, H.319, E.333 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.273, B:H.275, B:E.280, B:H.319, H2O.11 MN.5: 4 residues within 4Å: Chain C: H.95, H.97, E.101, H.140 6 PLIP interactions: 4 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:H.95, C:H.97, C:E.101, C:H.140, H2O.22, H2O.23 MN.6: 5 residues within 4Å: Chain C: H.273, H.275, E.280, H.319, E.333 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.273, C:H.275, C:E.280, C:H.319, H2O.21 MN.7: 4 residues within 4Å: Chain D: H.95, H.97, E.101, H.140 6 PLIP interactions: 4 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:H.95, D:H.97, D:E.101, D:H.140, H2O.32, H2O.33 MN.8: 5 residues within 4Å: Chain D: H.273, H.275, E.280, H.319, E.333 5 PLIP interactions: 4 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:H.273, D:H.275, D:E.280, D:H.319, H2O.31 MN.9: 4 residues within 4Å: Chain E: H.95, H.97, E.101, H.140 6 PLIP interactions: 4 interactions with chain E, 2 Ligand-Water interactions Metal complexes: E:H.95, E:H.97, E:E.101, E:H.140, H2O.42, H2O.43 MN.10: 5 residues within 4Å: Chain E: H.273, H.275, E.280, H.319, E.333 5 PLIP interactions: 4 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:H.273, E:H.275, E:E.280, E:H.319, H2O.41 MN.11: 4 residues within 4Å: Chain F: H.95, H.97, E.101, H.140 6 PLIP interactions: 4 interactions with chain F, 2 Ligand-Water interactions Metal complexes: F:H.95, F:H.97, F:E.101, F:H.140, H2O.52, H2O.53 MN.12: 5 residues within 4Å: Chain F: H.273, H.275, E.280, H.319, E.333 5 PLIP interactions: 4 interactions with chain F, 1 Ligand-Water interactions Metal complexes: F:H.273, F:H.275, F:E.280, F:H.319, H2O.50

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pastore, A.J. et al., Oxalate decarboxylase uses electron hole hopping for catalysis. J.Biol.Chem. (2021)

Release Date

2021-02-17

Peptides

Oxalate decarboxylase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

Oxalate decarboxylase