SMTL ID : 7a9a.6 (7 other biounits)

Crystal structure of rubredoxin B (Rv3250c) from Mycobacterium tuberculosis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.17 Å

Oligo State

monomer

Ligands

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

FE.1: 8 residues within 4Å: Chain A: C.9, Q.11, C.12, F.14, C.42, D.44, C.45, A.47 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.9, A:C.12, A:C.42, A:C.45

6 x ZN: ZINC ION(Non-covalent)

ZN.2: 2 residues within 4Å: Chain A: D.34, D.35 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.34, A:D.35, H2O.1, H2O.1 ZN.3: 2 residues within 4Å: Chain A: S.60 Ligands: GOL.8 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:S.60, A:S.60 ZN.4: 1 residues within 4Å: Chain A: E.56 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.56, H2O.1 ZN.5: 2 residues within 4Å: Chain A: D.39 Ligands: GOL.9 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.39 ZN.6: 1 residues within 4Å: Chain A: E.53 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.53, A:E.53, H2O.1, H2O.2 ZN.7: 1 residues within 4Å: Chain A: D.38 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.38, H2O.1

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 2 residues within 4Å: Chain A: S.60 Ligands: ZN.3 No protein-ligand interaction detected (PLIP) GOL.9: 3 residues within 4Å: Chain A: D.39, S.41 Ligands: ZN.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.41 Water bridges: A:S.41

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sushko, T. et al., A new twist of rubredoxin function in M. tuberculosis. Bioorg.Chem. (2021)

Release Date

2021-03-03

Peptides

Rubredoxin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

Rubredoxin

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