1K6D

CRYSTAL STRUCTURE OF ACETATE COA-TRANSFERASE ALPHA SUBUNIT

• PDB DOI: https://doi.org/10.2210/pdb1K6D/pdb

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


• Deposited: 2001-10-15 Released: 2002-06-26 
• Deposition Author(s): Korolev, S., Koroleva, O., Petterson, K., Collart, F., Dementieva, I., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.235 
• R-Value Work: 0.201 
• R-Value Observed: 0.201 

Literature

Autotracing of Escherichia coli acetate CoA-transferase alpha-subunit structure using 3.4 A MAD and 1.9 A native data.

Korolev, S., Koroleva, O., Petterson, K., Gu, M., Collart, F., Dementieva, I., Joachimiak, A.

(2002) Acta Crystallogr D Biol Crystallogr 58: 2116-2121

• PubMed: 12454473 
• DOI: https://doi.org/10.1107/s0907444902017055
• Primary Citation of Related Structures:  
  1K6D


• PubMed Abstract: 
  

  The automation of protein structure determination is an essential component for high-throughput structural analysis in protein X-ray crystallography and is a key element in structural genomics. This highly challenging undertaking relies at present on the availability of high-quality native and derivatized protein crystals diffracting to high or moderate resolution, respectively. Obtaining such crystals often requires significant effort. The present study demonstrates that phases obtained at low resolution (>3.0 A) from crystals of SeMet-labeled protein can be successfully used for automated structure determination. The crystal structure of acetate CoA-transferase alpha-subunit was solved using 3.4 A multi-wavelength anomalous dispersion data collected from a crystal containing SeMet-substituted protein and 1.9 A data collected from a native protein crystal.

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Organizational Affiliation: 

Biosciences Division and Structural Biology Center, Argonne National Laboratory, 9700 South Cass Avenue, Argonne, IL 60439, USA.

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: 47.2 kDa 
• Atom Count: 3,470 
• Modelled Residue Count: 436 
• Deposited Residue Count: 440 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ACETATE COA-TRANSFERASE ALPHA SUBUNIT	A, B	220	Escherichia coli	Mutation(s): 0  EC: 2.8.3.8
UniProt
Find proteins for P76458 (Escherichia coli (strain K12)) Explore P76458  Go to UniProtKB:  P76458

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MG	C [auth A], D [auth A], E [auth B], F [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.235 
• R-Value Work: 0.201 
• R-Value Observed: 0.201 
• Space Group: P 6₂

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.496	α = 90
b = 88.496	β = 90
c = 105.08	γ = 120

Software Package:

Software Name	Purpose
d*TREK	data scaling
HKL-2000	data reduction
SnB	phasing
SHARP	phasing
ARP/wARP	model building
CNS	refinement
d*TREK	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2002-06-26 
Deposition Author(s): Korolev, S., Koroleva, O., Petterson, K., Collart, F., Dementieva, I., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2002-06-26
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-02-07
  Changes: Data collection, Database references, Derived calculations, Refinement description