SMTL ID : 4qma.1

Crystal Structure of a Putative Cysteine Dioxygnase From Ralstonia eutropha: An Alternative Modeling of 2GM6 from JCSG Target 361076

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

monomer

Ligands

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

FE.1: 4 residues within 4Å: Chain A: H.95, H.97, H.148 Ligands: OXY.2 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.95, A:H.97, A:H.148, H2O.1, H2O.1

1 x OXY: OXYGEN MOLECULE(Non-covalent)

OXY.2: 6 residues within 4Å: Chain A: F.84, H.95, H.97, Y.165, R.174 Ligands: FE.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.165, A:R.174, A:R.174

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

SO4.3: 5 residues within 4Å: Chain A: A.34, R.35, R.38 Ligands: SO4.4, EDO.10 3 PLIP interactions: 3 interactions with chain A Water bridges: A:A.34, A:R.35 Salt bridges: A:R.38 SO4.4: 4 residues within 4Å: Chain A: P.31, G.32, R.35 Ligands: SO4.3 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.32 Water bridges: A:R.35, A:R.35, A:R.35 Salt bridges: A:R.35

9 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 5 residues within 4Å: Chain A: G.32, E.33, A.34 Ligands: EDO.6, EDO.10 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.33, A:A.34 Water bridges: A:G.32 EDO.6: 3 residues within 4Å: Chain A: E.33, T.143 Ligands: EDO.5 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.33 Water bridges: A:E.33, A:E.33, A:T.143, A:T.143 EDO.7: 4 residues within 4Å: Chain A: F.58, N.192, P.193, Y.194 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.194 EDO.8: 3 residues within 4Å: Chain A: R.78, W.100, G.166 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.78 EDO.9: 4 residues within 4Å: Chain A: P.93, Y.177, T.178, E.179 No protein-ligand interaction detected (PLIP) EDO.10: 5 residues within 4Å: Chain A: G.32, E.33, A.34 Ligands: SO4.3, EDO.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.34 Water bridges: A:R.35 EDO.11: 4 residues within 4Å: Chain A: A.45, R.46, A.49, G.135 No protein-ligand interaction detected (PLIP) EDO.12: 2 residues within 4Å: Chain A: D.118, G.119 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.119 Water bridges: A:S.120 EDO.13: 3 residues within 4Å: Chain A: P.55, D.56, A.57 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.56, A:A.57

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Driggers, C.M. et al., Structures of Arg- and Gln-type bacterial cysteine dioxygenase homologs. Protein Sci. (2015)

Release Date

2014-11-26

Peptides

Cysteine dioxygenase type I: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cysteine dioxygenase type I