5C4N | pdb_00005c4n

CobK precorrin-6A reductase

• PDB DOI: https://doi.org/10.2210/pdb5C4N/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Rhodobacter capsulatus SB 1003
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2015-06-18 Released: 2015-12-09 
• Deposition Author(s): Gu, S., Pickersgill, R.W.
• Funding Organization(s): Biotechnology and Biological Sciences Research Council

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.63 Å
• R-Value Free: 
  0.208 (Depositor), 0.209 (DCC) 
• R-Value Work: 
  0.175 (Depositor) 
• R-Value Observed: 
  0.176 (Depositor) 

Literature

Crystal structure of CobK

Gu, S.

To be published.

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 26.82 kDa 
• Atom Count: 2,096 
• Modeled Residue Count: 244 
• Deposited Residue Count: 251 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Precorrin-6A reductase	A [auth D]	251	Rhodobacter capsulatus SB 1003	Mutation(s): 0  Gene Names: cobK, RCAP_rcc02043 EC: 1.3.1.54
UniProt
Find proteins for O68098 (Rhodobacter capsulatus (strain ATCC BAA-309 / NBRC 16581 / SB1003)) Explore O68098  Go to UniProtKB:  O68098

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAP	B [auth D]	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H28 N7 O17 P3 XJLXINKUBYWONI-NNYOXOHSSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.63 Å
• R-Value Free:  0.208 (Depositor), 0.209 (DCC) 
• R-Value Work:  0.175 (Depositor) 
• R-Value Observed: 0.176 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 33.87	α = 90
b = 73.14	β = 90
c = 103.22	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
Aimless	data scaling
MOLREP	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2015-12-09 
Deposition Author(s): Gu, S., Pickersgill, R.W.

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Funding Organization	Location	Grant Number
Biotechnology and Biological Sciences Research Council	United Kingdom	BB/I013334/1

Revision History  

• Version 1.0: 2015-12-09
  Type: Initial release
  
• Version 1.1: 2017-08-30
  Changes: Author supporting evidence
• Version 1.2: 2024-11-06
  Changes: Data collection, Database references, Structure summary