1M6Z

Crystal structure of reduced recombinant cytochrome c4 from Pseudomonas stutzeri

• PDB DOI: https://doi.org/10.2210/pdb1M6Z/pdb

• Classification: ELECTRON TRANSPORT
• Organism(s): Stutzerimonas stutzeri
• Expression System: Pseudomonas putida
• Mutation(s): No 


• Deposited: 2002-07-18 Released: 2003-09-16 
• Deposition Author(s): Noergaard, A., Harris, P., Larsen, S., Christensen, H.E.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free: 0.191 
• R-Value Work: 0.140 
• R-Value Observed: 0.143 

Starting Model: experimental

Literature

Structural comparison of recombinant Pseudomonas stutzeri cytochrome c4 in two oxidation states

Noergaard, A., Harris, P., Larsen, S., Christensen, H.E.M.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Biological Assembly 4  

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

Biological assembly 4 assigned by authors.

Macromolecule Content

• Total Structure Weight: 84.05 kDa 
• Atom Count: 6,648 
• Modelled Residue Count: 760 
• Deposited Residue Count: 760 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome c4	A, B, C, D	190	Stutzerimonas stutzeri	Mutation(s): 0
UniProt
Find proteins for Q52369 (Stutzerimonas stutzeri) Explore Q52369  Go to UniProtKB:  Q52369

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEC	E [auth A], F [auth A], H [auth B], I [auth B], J [auth C], K [auth C], M [auth D], N [auth D]	HEME C C34 H34 Fe N4 O4 HXQIYSLZKNYNMH-LJNAALQVSA-N
TRS	O [auth D]	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C4 H12 N O3 LENZDBCJOHFCAS-UHFFFAOYSA-O
GOL	G [auth A], L [auth C]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free: 0.191 
• R-Value Work: 0.140 
• R-Value Observed: 0.143 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 75.11	α = 90
b = 57.56	β = 104.32
c = 83.75	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
SHELXL-97	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-09-16 
Deposition Author(s): Noergaard, A., Harris, P., Larsen, S., Christensen, H.E.M.

Revision History  

• Version 1.0: 2003-09-16
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.3: 2018-05-23
  Changes: Data collection
• Version 1.4: 2023-10-25
  Changes: Data collection, Database references, Derived calculations, Refinement description