2WZC

The catalytically active fully closed conformation of human phosphoglycerate kinase in complex with ADP, 3PG and aluminium tetrafluoride


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.198
  • R-Value Work: 0.164

Literature

Macromolecules
Sequence Display for 2WZC

Classification: TRANSFERASE

Total Structure Weight: 45317.42

Macromolecule Entities
Molecule Chains Length Organism Details
PHOSPHOGLYCERATE KINASE 1 A 416 Homo sapiens EC#: 2.7.2.3 IUBMB
Fragment: RESIDUES 2-417
Details: COMPLEXED WITH ADP, 3PG AND ALUMINIUM FLUORIDE
Gene Name(s): PGK1 Gene View PGKA MIG10 OK/SW-cl.110
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
3PG
Query on 3PG

A 3-PHOSPHOGLYCERIC ACID
C3 H7 O7 P
OSJPPGNTCRNQQC-UWTATZPHSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ALF
Query on ALF

A TETRAFLUOROALUMINATE ION
Al F4
UYOMQIYKOOHAMK-UHFFFAOYSA-J
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.198
  • R-Value Work: 0.164
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 39.22 α = 90.00
b = 91.92 β = 90.00
c = 108.14 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-11-27
  • Released Date: 2010-04-14
  • Deposition author(s): Bowler, M.W., Cliff, M.J., Marston, J.P.M., Baxter, N.J., Hownslow, A.M.H., Varga, A.V., Szabo, J., Vas, M., Blackburn, G.M., Waltho, J.P.

Revision History

  • 2011-07-13
    Type: Advisory, Version format compliance
  • 2011-12-07
    Type: Database references