4C4B | pdb_00004c4b

Superoxide reductase (Neelaredoxin) from Archaeoglobus fulgidus E12V in the reduced form

• PDB DOI: https://doi.org/10.2210/pdb4C4B/pdb

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


• Deposited: 2013-09-03 Released: 2014-07-23 
• Deposition Author(s): Bandeiras, T.M., Rodrigues, J.V., Sousa, C.M., Barradas, A.R., Pinho, F.G., Pinto, A.F., Teixeira, M., Matias, P.M., Romao, C.V.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 
  0.215 (Depositor), 0.221 (DCC) 
• R-Value Work: 
  0.177 (Depositor), 0.185 (DCC) 
• R-Value Observed: 
  0.178 (Depositor) 

Starting Model: experimental

Literature

Understanding the Role of Key Residues in the Superoxide Reductase Molecular Mechanism, Exploring Archaeoglobus Fulgidus Sor Structure

Bandeiras, T.M., Rodrigues, J.V., Sousa, C.M., Barradas, A.R., Pinho, F.G., Pinto, A.F., Teixeira, M., Matias, P.M., Romao, C.V.

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)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 27.66 kDa 
• Atom Count: 1,989 
• Modeled Residue Count: 250 
• Deposited Residue Count: 250 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SUPEROXIDE REDUCTASE	A, B	125	Archaeoglobus fulgidus	Mutation(s): 1  EC: 1.15.1.2
UniProt
Find proteins for O29903 (Archaeoglobus fulgidus (strain ATCC 49558 / DSM 4304 / JCM 9628 / NBRC 100126 / VC-16)) Explore O29903  Go to UniProtKB:  O29903

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	D [auth A], E [auth A], G [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
FE2	C [auth A], F [auth B]	FE (II) ION Fe CWYNVVGOOAEACU-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.215 (Depositor), 0.221 (DCC) 
• R-Value Work:  0.177 (Depositor), 0.185 (DCC) 
• R-Value Observed: 0.178 (Depositor) 

Space Group: I 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 93.264	α = 90
b = 99.17	β = 90
c = 106.199	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-07-23 
Deposition Author(s): Bandeiras, T.M., Rodrigues, J.V., Sousa, C.M., Barradas, A.R., Pinho, F.G., Pinto, A.F., Teixeira, M., Matias, P.M., Romao, C.V.

Revision History  

• Version 1.0: 2014-07-23
  Type: Initial release
  
• Version 1.1: 2023-12-20
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description