Biological Assembly 1  

 3D View: Structure | Electron Density

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

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

Biological Assembly 2  

 3D View: Structure | Electron Density

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

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

Macromolecule Content

• Total Structure Weight: 267.75 kDa 
• Atom Count: 18407 
• Residue Count: 2334 
• Unique protein chains: 1

2ZCI

Structure of a GTP-dependent bacterial PEP-carboxykinase from Corynebacterium glutamicum

• DOI: 10.2210/pdb2ZCI/pdb

• Classification: SIGNALING PROTEIN, LYASE
• Organism(s): Corynebacterium glutamicum
• Mutation(s): No 


• Deposited: 2007-11-09 Released: 2008-04-15 
• Deposition Author(s): Aich, S., Prasad, L., Delbaere, L.T.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.279 
• R-Value Work: 0.188 
• R-Value Observed: 0.192 

Literature

Structure of a GTP-dependent bacterial PEP-carboxykinase from Corynebacterium glutamicum.

Aich, S., Prasad, L., Delbaere, L.T.

(2008) Int J Biochem Cell Biol 40: 1597-1603

• PubMed: 18234538 
• DOI: 10.1016/j.biocel.2007.12.002
• Structures With Same Primary Citation


• PubMed Abstract: 
  

GTP-dependent phosphoenolpyruvate carboxykinase (PCK) is the key enzyme that controls the blood glucose level during fasting in higher animals. Here we report the first substrate-free structure of a GTP-dependent phosphoenolpyruvate (PEP) carboxykinase from a bacterium, Corynebacterium glutamicum (CgPCK). The protein crystallizes in space group P2(1) with four molecules per asymmetric unit. The 2.3A resolution structure was solved by molecular replacement using the human cytosolic PCK (hcPCK) structure (PDB ID: 1KHF) as the starting model. The four molecules in the asymmetric unit pack as two dimers, and is an artifact of crystal packing. However, the P-loop and the guanine binding loop of the substrate-free CgPCK structure have different conformations from the other published GTP-specific PCK structures, which all have bound substrates and/or metal ions. It appears that a change in the P-loop and guanine binding loop conformation is necessary for substrate binding in GTP-specific PCKs, as opposed to overall domain movement in ATP-specific PCKs.

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Organizational Affiliation: 

Department of Biochemistry, University of Saskatchewan, Saskatoon, Saskatchewan S7N 5E5, Canada.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Phosphoenolpyruvate carboxykinase [GTP]	A, B, C, D	610	Corynebacterium glutamicum	Mutation(s): 0  EC: 4.1.1.32
Find proteins for Q9AEM1 (Corynebacterium glutamicum (strain ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025)) Go to UniProtKB:  Q9AEM1

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.279 
• R-Value Work: 0.188 
• R-Value Observed: 0.192 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.336	α = 90
b = 118.055	β = 96.44
c = 152.931	γ = 90

Software Package:

Software Name	Purpose
ADSC	data collection
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2007-11-09 
• Released Date: 2008-04-15 
Deposition Author(s): Aich, S., Prasad, L., Delbaere, L.T.J.

Revision History 

• Version 1.0: 2008-04-15
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance