2GMV

PEPCK complex with a GTP-competitive inhibitor

  • Classification: LYASE
  • Deposited: 2006-04-07 Released: 2007-05-29
  • Deposition author(s): Dunten, P.
  • Organism: Homo sapiens
  • Expression System: Escherichia coli
  • Mutation(s): 4

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.287
  • R-Value Work: 0.217

Literature

Macromolecules
Sequence Display for 2GMV

Classification: LYASE

Total Structure Weight: 140070.98

Macromolecule Entities
Molecule Chains Length Organism Details
Phosphoenolpyruvate carboxykinase, cytosolic A, B 625 Homo sapiens EC#: 4.1.1.32 IUBMB
Mutation: V184L, I267V, E586D, E597V
Gene Name(s): PCK1 Gene View PEPCK1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
UN8
Query on UN8

A N-(4-{[3-BUTYL-1-(2-FLUOROBENZYL)-2,6-DIOXO- 2,3,6,7-TETRAHYDRO-1H-PURIN-8-YL]METHYL}PHENYL)- 1-METHYL-1H-IMIDAZOLE-4-SULFONAMIDE
C27 H28 F N7 O4 S
OWJCXBGUTOMZTE-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PEP
Query on PEP

A, B PHOSPHOENOLPYRUVATE
C3 H5 O6 P
DTBNBXWJWCWCIK-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MN
Query on MN

A, B MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
UN8 IC50: 630 nM (99) BindingDB

IC50: 630 nM  BindingMOAD
IC50: 630 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.287
  • R-Value Work: 0.217
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 128.01 α = 90.00
b = 66.13 β = 145.09
c = 137.36 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-04-07
  • Released Date: 2007-05-29
  • Deposition author(s): Dunten, P.

Revision History

  • Version 1_0: 2007-05-29

    Type: Initial release

  • Version 1_1: 2008-05-01

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance