3PZJ | pdb_00003pzj

Crystal structure of a probable acetyltransferases (GNAT family) from Chromobacterium violaceum ATCC 12472

• PDB DOI: https://doi.org/10.2210/pdb3PZJ/pdb

• Classification: TRANSFERASE
• Organism(s): Chromobacterium violaceum
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2010-12-14 Released: 2011-01-19 
• Deposition Author(s): Nocek, B., Stein, A., Bigelow, L., Feldmann, B., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 
  0.244 (Depositor), 0.244 (DCC) 
• R-Value Work: 
  0.195 (Depositor), 0.201 (DCC) 
• R-Value Observed: 
  0.197 (Depositor) 

Literature

Crystal structure of a probable acetyltransferases (GNAT family) from Chromobacterium violaceum ATCC 12472

Nocek, B., Stein, A., Bigelow, L., Feldmann, B., 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: 46.8 kDa 
• Atom Count: 3,084 
• Modeled Residue Count: 381 
• Deposited Residue Count: 418 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable acetyltransferases	A, B	209	Chromobacterium violaceum	Mutation(s): 0  Gene Names: CV_1740 EC: 2.3.1
UniProt
Find proteins for Q7NX87 (Chromobacterium violaceum (strain ATCC 12472 / DSM 30191 / JCM 1249 / CCUG 213 / NBRC 12614 / NCIMB 9131 / NCTC 9757 / MK)) Explore Q7NX87  Go to UniProtKB:  Q7NX87

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	D [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
NA	C [auth A], E [auth B]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

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: 1.85 Å
• R-Value Free:  0.244 (Depositor), 0.244 (DCC) 
• R-Value Work:  0.195 (Depositor), 0.201 (DCC) 
• R-Value Observed: 0.197 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.665	α = 90
b = 67.434	β = 90
c = 85.271	γ = 90

Software Package:

Software Name	Purpose
SBC-Collect	data collection
HKL-3000	phasing
SHELX	model building
ARP/wARP	model building
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling
SHELX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-01-19 
Deposition Author(s): Nocek, B., Stein, A., Bigelow, L., Feldmann, B., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2011-01-19
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary