2E0A

Crystal structure of human pyruvate dehydrogenase kinase 4 in complex with AMPPNP

Structural Biology Knowledgebase: 2E0A SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.86 Å
  • R-Value Free: 0.231
  • R-Value Work: 0.196

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2E0A

Classification: TRANSFERASE

Total Structure Weight: 90603.80

Macromolecule Entities
Molecule Chains Length Organism Details
Pyruvate dehydrogenase kinase isozyme 4 A, B 394 Homo sapiens EC#: 2.7.11.2 IUBMB
Fragment: residues 20-411
Gene Name(s): PDK4 Gene View PDHK4

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

A, B PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER
C10 H17 N6 O12 P3
PVKSNHVPLWYQGJ-KQYNXXCUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.86 Å
  • R-Value Free: 0.231
  • R-Value Work: 0.196
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 71.12 α = 90.00
b = 68.46 β = 101.05
c = 79.75 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-10-03
  • Released Date: 2007-10-09
  • Deposition author(s): Kukimoto-Niino, M., Tokmakov, A., Terada, T., Shiromizu, I., Kawamoto, M., Matsusue, T., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History

  • 2011-11-23
    Type: Citation | Details: Citation update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4