6BGF

Crystal structure of cysteine-bound ferrous form of the crosslinked human cysteine dioxygenase

  • Classification: OXIDOREDUCTASE
  • Organism(s): Homo sapiens
  • Expression System: Escherichia coli

  • Deposited: 2017-10-28 Released: 2017-12-13 
  • Deposition Author(s): Liu, A., Li, J., Shin, I.
  • Funding Organization(s): National Science Foundation (United States); National Institutes of Health/National Institute of General Medical Sciences 

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.251 Å
  • R-Value Free: 0.219 
  • R-Value Work: 0.165 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Crystal structure of cysteine-bound ferrous form of the crosslinked human cysteine dioxygenase.

Liu, A.Li, J.Shin, I.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Cysteine dioxygenase type 1
A
200Homo sapiensMutation(s): 0 
Gene Names: CDO1
EC: 1.13.11.20
Find proteins for Q16878 (Homo sapiens)
Go to Gene View: CDO1
Go to UniProtKB:  Q16878
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
GOL
Query on GOL

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Download CCD File 
A
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
FE2
Query on FE2

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Download CCD File 
A
FE (II) ION
Fe
CWYNVVGOOAEACU-UHFFFAOYSA-N
 Ligand Interaction
CYS
Query on CYS

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Download CCD File 
A
CYSTEINE
C3 H7 N O2 S
XUJNEKJLAYXESH-REOHCLBHSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.251 Å
  • R-Value Free: 0.219 
  • R-Value Work: 0.165 
  • Space Group: P 65
Unit Cell:
Length (Å)Angle (°)
a = 131.295α = 90.00
b = 131.295β = 90.00
c = 34.218γ = 120.00
Software Package:
Software NamePurpose
PHASERphasing
DENZOdata collection
PHENIXrefinement
HKL-2000data reduction
PDB_EXTRACTdata extraction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2017-10-28 
  • Released Date: 2017-12-13 
  • Deposition Author(s): Liu, A., Li, J., Shin, I.

Funding OrganizationLocationGrant Number
National Science Foundation (United States)United StatesCHE-1623856
National Institutes of Health/National Institute of General Medical SciencesUnited StatesR01GM107529
National Institutes of Health/National Institute of General Medical SciencesUnited StatesR01GM108988

Revision History 

  • Version 1.0: 2017-12-13
    Type: Initial release
  • Version 1.1: 2018-01-17
    Type: Author supporting evidence