2R9I

Crystal structure of putative phage capsid protein domain from Corynebacterium diphtheriae

• PDB DOI: https://doi.org/10.2210/pdb2R9I/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Corynebacterium diphtheriae NCTC 13129
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2007-09-12 Released: 2007-12-18 
• Deposition Author(s): Wu, R., Abdullah, J., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.242 
• R-Value Work: 0.219 
• R-Value Observed: 0.220 

Literature

The crystal structure of putative phage capsid protein domain from Corynebacterium diphtheriae.

Wu, R., Abdullah, J., Joachimiak, 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: 15.52 kDa 
• Atom Count: 552 
• Modelled Residue Count: 72 
• Deposited Residue Count: 141 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative phage capsid protein	A	141	Corynebacterium diphtheriae NCTC 13129	Mutation(s): 0  Gene Names: DIP0205
UniProt
Find proteins for Q6NK34 (Corynebacterium diphtheriae (strain ATCC 700971 / NCTC 13129 / Biotype gravis)) Explore Q6NK34  Go to UniProtKB:  Q6NK34

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.242 
• R-Value Work: 0.219 
• R-Value Observed: 0.220 
• Space Group: I 2 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 102.905	α = 90
b = 102.905	β = 90
c = 102.905	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
SBC-Collect	data collection
HKL-3000	data reduction
HKL-3000	data scaling
MLPHARE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-12-18 
Deposition Author(s): Wu, R., Abdullah, J., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2007-12-18
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance