Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 69708.77 
• Atom Count: 4730 
• Residue Count: 625 
• Unique protein chains: 1

1KHG

PEPCK

• DOI: 10.2210/pdb1KHG/pdb

• Classification: LYASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2001-11-29 Released: 2002-02-27 
• Deposition Author(s): Dunten, P., Belunis, C., Crowther, R., Hollfelder, K., Kammlott, U., Levin, W., Michel, H., Ramsey, G.B., Swain, A., Weber, D., Wertheimer, S.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.34 Å
• R-Value Free: 0.281 
• R-Value Work: 0.185 

Literature

Crystal structure of human cytosolic phosphoenolpyruvate carboxykinase reveals a new GTP-binding site.

Dunten, P., Belunis, C., Crowther, R., Hollfelder, K., Kammlott, U., Levin, W., Michel, H., Ramsey, G.B., Swain, A., Weber, D., Wertheimer, S.J.

(2002) J.Mol.Biol. 316: 257-264

• PubMed: 11851336 
• DOI: 10.1006/jmbi.2001.5364
• Primary Citation of Related Structures:  
  1KHF, 1KHE, 1KHB
• Also Cited By: 2GMV


• PubMed Abstract: 
  

We report crystal structures of the human enzyme phosphoenolpyruvate carboxykinase (PEPCK) with and without bound substrates. These structures are the first to be determined for a GTP-dependent PEPCK, and provide the first view of a novel GTP-binding site unique to the GTP-dependent PEPCK family. Three phenylalanine residues form the walls of the guanine-binding pocket on the enzyme's surface and, most surprisingly, one of the phenylalanine side-chains contributes to the enzyme's specificity for GTP. PEPCK catalyzes the rate-limiting step in the metabolic pathway that produces glucose from lactate and other precursors derived from the citric acid cycle. Because the gluconeogenic pathway contributes to the fasting hyperglycemia of type II diabetes, inhibitors of PEPCK may be useful in the treatment of diabetes.

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Organizational Affiliation: 

Roche Research Center, Hoffmann-La Roche Inc., Nutley, NJ 07110, USA. [e-mail]

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Phosphoenolpyruvate carboxykinase, cytosolic (GTP)	A	625	Homo sapiens	Mutation(s): 0  Gene Names: PCK1 (PEPCK1) EC: 4.1.1.32
Find proteins for P35558 (Homo sapiens) Go to Gene View: PCK1 Go to UniProtKB:  P35558

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
MN	A	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N
EDO	A	1,2-ETHANEDIOL ETHYLENE GLYCOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.34 Å
• R-Value Free: 0.281 
• R-Value Work: 0.185 
• Space Group: P 1

Unit Cell:

Length (Å)	Angle (°)
a = 45.388	α = 88.69
b = 60.872	β = 70.13
c = 61.974	γ = 72.37

Software Package:

Software Name	Purpose
REFMAC	refinement
MAR345	data collection
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2001-11-29 
• Released Date: 2002-02-27 
• Deposition Author(s): Dunten, P., Belunis, C., Crowther, R., Hollfelder, K., Kammlott, U., Levin, W., Michel, H., Ramsey, G.B., Swain, A., Weber, D., Wertheimer, S.J.

Revision History 

• Version 1.0: 2002-02-27
  Type: Initial release
• Version 1.1: 2008-04-27
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2017-10-11
  Type: Refinement description