4EID

Crystal structure of cytochrome c6 Q57V mutant from Synechococcus sp. PCC 7002

• PDB DOI: https://doi.org/10.2210/pdb4EID/pdb

• Classification: ELECTRON TRANSPORT
• Organism(s): Picosynechococcus sp. PCC 7002
• Expression System: Escherichia coli DH5[alpha]
• Mutation(s): Yes 


• Deposited: 2012-04-05 Released: 2013-04-10 
• Deposition Author(s): Krzywda, S., Bialek, W., Zatwarnicki, P., Jaskolski, M., Szczepaniak, A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.13 Å
• R-Value Free: 0.176 
• R-Value Work: 0.138 
• R-Value Observed: 0.139 

Starting Model: experimental

Literature

Cytochrome c6 and c6C from Synechococcus sp. PCC 7002 - structure and function.

Bialek, W., Krzywda, S., Zatwarnicki, P., Jaskolski, M., Szczepaniak, A.

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: 10.23 kDa 
• Atom Count: 882 
• Modelled Residue Count: 93 
• Deposited Residue Count: 93 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytochrome c6	A	93	Picosynechococcus sp. PCC 7002	Mutation(s): 1  Gene Names: petJ, petJ1, SYNPCC7002_A0167
UniProt
Find proteins for O30881 (Picosynechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6)) Explore O30881  Go to UniProtKB:  O30881

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEC	B [auth A]	HEME C C34 H34 Fe N4 O4 HXQIYSLZKNYNMH-LJNAALQVSA-N
MES	C [auth A]	2-(N-MORPHOLINO)-ETHANESULFONIC ACID C6 H13 N O4 S SXGZJKUKBWWHRA-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.13 Å
• R-Value Free: 0.176 
• R-Value Work: 0.138 
• R-Value Observed: 0.139 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 31.781	α = 90
b = 27.637	β = 101.16
c = 44.099	γ = 90

Software Package:

Software Name	Purpose
AUTOMAR	data collection
MOLREP	phasing
REFMAC	refinement
XDS	data reduction
XDS	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-04-10 
Deposition Author(s): Krzywda, S., Bialek, W., Zatwarnicki, P., Jaskolski, M., Szczepaniak, A.

Revision History  

• Version 1.0: 2013-04-10
  Type: Initial release
  
• Version 1.1: 2017-09-27
  Changes: Data collection
• Version 2.0: 2021-03-10
  Changes: Atomic model, Data collection, Database references, Derived calculations, Non-polymer description, Structure summary
• Version 2.1: 2023-09-13
  Changes: Data collection, Database references, Refinement description
• Version 2.2: 2024-10-30
  Changes: Structure summary