4W9R | pdb_00004w9r

Crystal structure of uncharacterised protein Coch_1243 from Capnocytophaga ochracea DSM 7271

• PDB DOI: https://doi.org/10.2210/pdb4W9R/pdb

• Classification: Structural Genomics, Unknown Function
• Organism(s): Capnocytophaga ochracea DSM 7271
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2014-08-27 Released: 2014-09-10 
• Deposition Author(s): Chang, C., Wu, R., Clancy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 
  0.211 (Depositor), 0.215 (DCC) 
• R-Value Work: 
  0.184 (Depositor), 0.191 (DCC) 
• R-Value Observed: 
  0.185 (Depositor) 

Literature

Crystal structure of uncharacterised protein Coch_1243 from Capnocytophaga ochracea DSM 7271

Chang, C., Wu, R., Clancy, S., Joachimiak, A.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 92.33 kDa 
• Atom Count: 5,921 
• Modeled Residue Count: 721 
• Deposited Residue Count: 796 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uncharacterized protein	A, B	398	Capnocytophaga ochracea DSM 7271	Mutation(s): 0  Gene Names: Coch_1243
UniProt
Find proteins for C7M590 (Capnocytophaga ochracea (strain ATCC 27872 / DSM 7271 / CCUG 9716 / JCM 12966 / NCTC 12371 / SS31 / VPI 2845)) Explore C7M590  Go to UniProtKB:  C7M590

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	C [auth A], D [auth A], E [auth A], H [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
ACT	F [auth A], G [auth A], I [auth B]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free:  0.211 (Depositor), 0.215 (DCC) 
• R-Value Work:  0.184 (Depositor), 0.191 (DCC) 
• R-Value Observed: 0.185 (Depositor) 

Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 145.229	α = 90
b = 145.229	β = 90
c = 138.391	γ = 120

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
SBC-Collect	data collection
HKL-3000	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-09-10 
Deposition Author(s): Chang, C., Wu, R., Clancy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2014-09-10
  Type: Initial release
  
• Version 1.1: 2017-05-10
  Changes: Data collection
• Version 1.2: 2017-09-27
  Changes: Refinement description
• Version 1.3: 2023-12-27
  Changes: Data collection, Database references, Refinement description
• Version 1.4: 2024-11-20
  Changes: Structure summary