5EZW | pdb_00005ezw

Thiosulfate bound rat cysteine dioxygenase Y157H variant

• PDB DOI: https://doi.org/10.2210/pdb5EZW/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Rattus norvegicus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2015-11-27 Released: 2016-11-09 
• Deposition Author(s): Fellner, M., Tchesnokov, E.P., Jameson, G.N.L., Wilbanks, S.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.65 Å
• R-Value Free: 
  0.192 (Depositor), 0.200 (DCC) 
• R-Value Work: 
  0.172 (Depositor), 0.170 (DCC) 
• R-Value Observed: 
  0.173 (Depositor) 

Starting Model: experimental

Literature

Thiosulfate bound rat cysteine dioxygenase Y157H variant

Fellner, M., Wilbanks, S.M.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 24.4 kDa 
• Atom Count: 1,782 
• Modeled Residue Count: 187 
• Deposited Residue Count: 210 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cysteine dioxygenase type 1	A	210	Rattus norvegicus	Mutation(s): 1  Gene Names: Cdo1 EC: 1.13.11.20
UniProt
Find proteins for P21816 (Rattus norvegicus) Explore P21816  Go to UniProtKB:  P21816

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
THJ	C [auth A]	THIOSULFATE O3 S2 DHCDFWKWKRSZHF-UHFFFAOYSA-L
FE2	B [auth A]	FE (II) ION Fe CWYNVVGOOAEACU-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.65 Å
• R-Value Free:  0.192 (Depositor), 0.200 (DCC) 
• R-Value Work:  0.172 (Depositor), 0.170 (DCC) 
• R-Value Observed: 0.173 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.75	α = 90
b = 57.75	β = 90
c = 122.42	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
Aimless	data scaling
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-11-09 
Deposition Author(s): Fellner, M., Tchesnokov, E.P., Jameson, G.N.L., Wilbanks, S.M.

Revision History  

• Version 1.0: 2016-11-09
  Type: Initial release
  
• Version 1.1: 2023-09-27
  Changes: Data collection, Database references, Derived calculations, Refinement description