1NHX

PEPCK COMPLEX WITH A GTP-COMPETITIVE INHIBITOR

Structural Biology Knowledgebase: 1NHX SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.217
  • R-Value Work: 0.173

Literature

Macromolecules
Sequence Display for 1NHX

Classification: LYASE

Total Structure Weight: 70363.85

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

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
FTB
Query on FTB

A N-{4-[1-(2-FLUOROBENZYL)-3-BUTYL-2,6-DIOXO- 2,3,6,7-TETRAHYDRO-1H-PURIN-8-YLMETHYL]-PHENYL}- ACETAMIDE
1-(2-FLUOROBENZYL)-3-BUTYL-8-(N-ACETYL-4- AMINOBENZYL)-XANTHINE (Synonym)
C25 H26 F N5 O3
JHSHXKJSPVHPCJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PEP
Query on PEP

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

A 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-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)
NA
Query on NA

A SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
FTB EC50: 8600 nM (90) BindingDB
IC50: 2110 nM (99) BindingDB

IC50: 2110 nM  BindingMOAD
IC50: 2110 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.217
  • R-Value Work: 0.173
  • Space Group: P 1

Unit Cell:

Length (Å) Angle (°)
a = 45.38 α = 89.71
b = 61.45 β = 70.24
c = 62.26 γ = 72.56

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-12-19
  • Released Date: 2003-09-30
  • Deposition author(s): Foley, L.H., Wang, P., Dunten, P., Ramsey, G., Gubler, M.-L., Wertheimer, S.J.

Revision History

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