6BGM Oxidoreductase date Oct 28, 2017
title Crystal Structure Of Ferrous Form Of The Crosslinked Human C Dioxygenase
authors A.Liu, J.Li, I.Shin
compound source
Molecule: Cysteine Dioxygenase Type 1
Chain: A
Synonym: Cysteine Dioxygenase Type I, Cdo-I
Ec: 1.13.11.20
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cdo1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 65
R_factor 0.179 R_Free 0.216
crystal
cell
length a length b length c angle alpha angle beta angle gamma
131.757 131.757 34.262 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.21 Å
ligand FE2, GOL, SO4 enzyme Oxidoreductase E.C.1.13.11.20 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCleavage of a carbon-fluorine bond by an engineered cysteine dioxygenase., Li J, Griffith WP, Davis I, Shin I, Wang J, Li F, Wang Y, Wherritt DJ, Liu A, Nat Chem Biol. 2018 Jun 25. pii: 10.1038/s41589-018-0085-5. doi:, 10.1038/s41589-018-0085-5. PMID:29942080
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (39 Kb) [Save to disk]
  • Biological Unit Coordinates (6bgm.pdb1.gz) 34 Kb
  • LPC: Ligand-Protein Contacts for 6BGM
  • CSU: Contacts of Structural Units for 6BGM
  • Structure Factors (120 Kb)
  • Retrieve 6BGM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6BGM from S2C, [Save to disk]
    • View 6BGM in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 6BGM
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6bgm_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6BGM
  • Community annotation for 6BGM at PDBWiki (http://pdbwiki.org)

    • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science