2ID1 | pdb_00002id1

X-Ray Crystal Structure of Protein CV0518 from Chromobacterium violaceum, Northeast Structural Genomics Consortium Target CvR5.

• PDB DOI: https://doi.org/10.2210/pdb2ID1/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Chromobacterium violaceum ATCC 12472
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2006-09-13 Released: 2006-09-26 
• Deposition Author(s): Forouhar, F., Zhou, W., Seetharaman, J., Ho, C.K., Janjua, H., Cunningham, K., Ma, L.C., Xiao, R., Liu, J., Baran, M., Acton, T.B., Rost, B., Montelione, G.T., Tong, L., Hunt, J.F., Northeast Structural Genomics Consortium (NESG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 
  0.269 (Depositor), 0.285 (DCC) 
• R-Value Work: 
  0.228 (Depositor), 0.234 (DCC) 
• R-Value Observed: 
  0.228 (Depositor) 

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.

Macromolecule Content

• Total Structure Weight: 29.09 kDa 
• Atom Count: 1,845 
• Modelled Residue Count: 240 
• Deposited Residue Count: 260 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical protein	A, B	130	Chromobacterium violaceum ATCC 12472	Mutation(s): 3  Gene Names: CV_0518
UniProt
Find proteins for Q7P0P8 (Chromobacterium violaceum (strain ATCC 12472 / DSM 30191 / JCM 1249 / CCUG 213 / NBRC 12614 / NCIMB 9131 / NCTC 9757 / MK)) Explore Q7P0P8  Go to UniProtKB:  Q7P0P8

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
IOD	C [auth A], D [auth B]	IODIDE ION I XMBWDFGMSWQBCA-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: 3.00 Å
• R-Value Free:  0.269 (Depositor), 0.285 (DCC) 
• R-Value Work:  0.228 (Depositor), 0.234 (DCC) 
• R-Value Observed: 0.228 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 44.188	α = 90
b = 76.099	β = 90
c = 74.55	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
ADSC	data collection
HKL-2000	data reduction
SCALEPACK	data scaling
SnB	phasing
SOLVE	phasing
RESOLVE	phasing
XTALVIEW	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-09-26 
Deposition Author(s): Forouhar, F., Zhou, W., Seetharaman, J., Ho, C.K., Janjua, H., Cunningham, K., Ma, L.C., Xiao, R., Liu, J., Baran, M., Acton, T.B., Rost, B., Montelione, G.T., Tong, L., Hunt, J.F., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2006-09-26
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.3: 2017-10-18
  Changes: Refinement description
• Version 1.4: 2025-03-26
  Changes: Data collection, Database references, Derived calculations, Structure summary