2A7W | pdb_00002a7w

Crystal Structure of Phosphoribosyl-ATP Pyrophosphatase from Chromobacterium violaceum (ATCC 12472). NESG TARGET CVR7

• PDB DOI: https://doi.org/10.2210/pdb2A7W/pdb

• Classification: HYDROLASE
• Organism(s): Chromobacterium violaceum
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2005-07-06 Released: 2005-10-25 
• Deposition Author(s): Benach, J., Forouhar, F., Kuzin, A.P., Abashidze, M., Vorobiev, S.M., Rong, X., Acton, T.B., Montelione, G.T., Hunt, J.F., Northeast Structural Genomics Consortium (NESG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 
  0.280 (Depositor), 0.284 (DCC) 
• R-Value Work: 
  0.258 (Depositor), 0.278 (DCC) 
• R-Value Observed: 
  0.258 (Depositor) 

Literature

Crystal Structure of Phosphoribosyl-ATP Pyrophosphatase from Chromobacterium violaceum. NESG Target CVR7.

Benach, J., Forouhar, F., Kuzin, A.P., Abashidze, M., Vorobiev, S.M., Rong, X., Acton, T.B., Montelione, G.T., Hunt, J.F.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Biological Assembly 2  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 3 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 161.02 kDa 
• Atom Count: 9,063 
• Modeled Residue Count: 1,092 
• Deposited Residue Count: 1,392 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phosphoribosyl-ATP pyrophosphatase	A, B, C, D, E, F, G, H, I, J, K, L	116	Chromobacterium violaceum	Mutation(s): 4  Gene Names: hisE EC: 3.6.1.31
UniProt
Find proteins for Q7P0E6 (Chromobacterium violaceum (strain ATCC 12472 / DSM 30191 / JCM 1249 / CCUG 213 / NBRC 12614 / NCIMB 9131 / NCTC 9757 / MK)) Explore Q7P0E6  Go to UniProtKB:  Q7P0E6

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B, C, D, E, F, G, H, I, J, K, L	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free:  0.280 (Depositor), 0.284 (DCC) 
• R-Value Work:  0.258 (Depositor), 0.278 (DCC) 
• R-Value Observed: 0.258 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 97.938	α = 90
b = 67.544	β = 92.45
c = 113.512	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
SCALEPACK	data scaling
SOLVE	phasing
CNS	refinement
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-10-25 
Deposition Author(s): Benach, J., Forouhar, F., Kuzin, A.P., Abashidze, M., Vorobiev, S.M., Rong, X., Acton, T.B., Montelione, G.T., Hunt, J.F., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2005-10-25
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary