3OA8

Diheme SoxAX

• PDB DOI: https://doi.org/10.2210/pdb3OA8/pdb

• Classification: Heme-binding protein/Heme-binding protein
• Organism(s): Ancylobacter novellus
• Expression System: Rhodobacter capsulatus
• Mutation(s): No 


• Deposited: 2010-08-04 Released: 2011-05-18 
• Deposition Author(s): Maher, M.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.77 Å
• R-Value Free: 
  0.230 (Depositor) 
• R-Value Work: 
  0.183 (Depositor), 0.186 (DCC) 
• R-Value Observed: 
  0.185 (Depositor) 

Literature

Diheme SoxAX proteins - insights into structure and function of the active site

Kilmartin, J., Maher, M.J., Krusong, K., Hanson, G.R., Bernhardt, P.V., Riley, M., Kappler, U.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Hetero 6-mer - A3B3 

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

Macromolecule Content

• Total Structure Weight: 163.12 kDa 
• Atom Count: 10,596 
• Modelled Residue Count: 1,227 
• Deposited Residue Count: 1,449 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SoxA	A, C, E	275	Ancylobacter novellus	Mutation(s): 0  EC: 2.8.5.2
UniProt
Find proteins for D7A6E5 (Ancylobacter novellus (strain ATCC 8093 / DSM 506 / JCM 20403 / CCM 1077 / IAM 12100 / NBRC 12443 / NCIMB 10456)) Explore D7A6E5  Go to UniProtKB:  D7A6E5

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
SoxX	B, D, F	208	Ancylobacter novellus	Mutation(s): 0
UniProt
Find proteins for Q7BQR5 (Ancylobacter novellus) Explore Q7BQR5  Go to UniProtKB:  Q7BQR5

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEC	G [auth A], H [auth B], J [auth C], K [auth D], L [auth E], M [auth F]	HEME C C34 H34 Fe N4 O4 HXQIYSLZKNYNMH-LJNAALQVSA-N
SO4	I [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CSS	A, C, E	L-PEPTIDE LINKING	C3 H7 N O2 S2		CYS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.77 Å
• R-Value Free:  0.230 (Depositor) 
• R-Value Work:  0.183 (Depositor), 0.186 (DCC) 
• R-Value Observed: 0.185 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 73.172	α = 110.02
b = 74.629	β = 108.08
c = 74.295	γ = 108.54

Software Package:

Software Name	Purpose
SHARP	phasing
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-05-18 
Deposition Author(s): Maher, M.J.

Revision History  

• Version 1.0: 2011-05-18
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary