SMTL ID : 6bpt.1

Crystal structure of ferrous form of the uncrosslinked F2-Tyr157 human cysteine dioxygenase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

1 x FE2: FE (II) ION(Non-covalent)

FE2.1: 4 residues within 4Å: Chain A: H.86, H.88, H.140, X.157 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.86, A:H.88, A:H.140, H2O.1, H2O.4, H2O.4

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

SO4.2: 4 residues within 4Å: Chain A: Q.34, R.123, A.131, Y.132 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Q.34, A:Y.132, A:Y.132 Water bridges: A:R.123, A:R.123, A:R.123 Salt bridges: A:R.123 SO4.3: 3 residues within 4Å: Chain A: K.119, R.141, Q.169 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Q.169, A:Q.169 Water bridges: A:K.103, A:K.119, A:E.122 Salt bridges: A:K.119, A:R.141 SO4.4: 3 residues within 4Å: Chain A: K.112, H.173, K.174 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:K.174 Water bridges: A:K.174, A:K.174, A:K.174 Salt bridges: A:K.112, A:H.173, A:K.174 SO4.5: 3 residues within 4Å: Chain A: Y.58, S.83, S.84 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.58, A:S.84, A:S.84, A:S.84 Water bridges: A:R.60

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 3 residues within 4Å: Chain A: H.165, K.174, K.176 No protein-ligand interaction detected (PLIP) GOL.7: 4 residues within 4Å: Chain A: M.179, T.180, F.181, K.184 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.181, A:K.184, A:K.184 GOL.8: 2 residues within 4Å: Chain A: A.48, A.51 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.51

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, J. et al., Cleavage of a carbon-fluorine bond by an engineered cysteine dioxygenase. Nat. Chem. Biol. (2018)

Release Date

2018-07-04

Peptides

Cysteine dioxygenase type 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cysteine dioxygenase type 1

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