1KHE

PEPCK complex with nonhydrolyzable GTP analog, MAD data

Structural Biology Knowledgebase: 1KHE SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.246
  • R-Value Work: 0.170

Literature

Macromolecules
Sequence Display for 1KHE

Classification: LYASE

Total Structure Weight: 71193.09

Macromolecule Entities
Molecule Chains Length Organism Details
Phosphoenolpyruvate Carboxykinase, cytosolic (GTP) A 625 Homo sapiens EC#: 4.1.1.32 IUBMB
Mutation: M1M, M60M, M117M, M134M, M139M, M146M, M170M, M173M, M176M, M250M, M265M, I267V, M295M, M296M, M315M, M460M, M476M, M482M, M500M, M540M, M574M, M575M, E586D, E597V, M622M
Gene Name(s): PCK1 Gene View PEPCK1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
GCP
Query on GCP

A PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER
C11 H18 N5 O13 P3
PHBDHXOBFUBCJD-KQYNXXCUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MN
Query on MN

A MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.246
  • R-Value Work: 0.170
  • Space Group: P 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 45.39 α = 88.36
b = 60.54 β = 70.39
c = 61.83 γ = 72.37

Structure Validation

View Full Validation Report or Ramachandran Plots



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

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4