2Q8F Transferase date Jun 10, 2007
title Structure Of Pyruvate Dehydrogenase Kinase Isoform 1
authors M.Kato, J.Li, J.L.Chuang, D.T.Chuang
compound source
Molecule: [Pyruvate Dehydrogenase [Lipoamide]] Kinase Isozy
Chain: A
Synonym: Pyruvate Dehydrogenase Kinase Isoform 1
Ec: 2.7.11.2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pdk1
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
symmetry Space Group: P 41 21 2
R_factor 0.190 R_Free 0.212
crystal
cell
length a length b length c angle alpha angle beta angle gamma
98.190 98.190 110.403 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.03 Å
ligand K enzyme Transferase E.C.2.7.11.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • protein kinase activity
  • protein serine/threonine kin...
  • pyruvate dehydrogenase (acet...


  • Primary referenceDistinct Structural Mechanisms for Inhibition of Pyruvate Dehydrogenase Kinase Isoforms by AZD7545, Dichloroacetate, and Radicicol., Kato M, Li J, Chuang JL, Chuang DT, Structure. 2007 Aug;15(8):992-1004. Epub 2007 Aug 2. PMID:17683942
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (70 Kb) [Save to disk]
  • Biological Unit Coordinates (2q8f.pdb1.gz) 127 Kb
  • LPC: Ligand-Protein Contacts for 2Q8F
  • CSU: Contacts of Structural Units for 2Q8F
  • Likely Quarternary Molecular Structure file(s) for 2Q8F
  • Structure Factors (513 Kb)
  • Retrieve 2Q8F in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2Q8F from S2C, [Save to disk]
  • Re-refined 2q8f structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2Q8F in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 2Q8F
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2Q8F, from MSDmotif at EBI
  • Fold representative 2q8f from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2q8f_A] [2q8f]
  • SWISS-PROT database: [Q15118]
  • Domain organization of [PDK1_HUMAN] by SWISSPFAM
  • Domain found in 2Q8F: [HATPase_c ] by SMART
  • Other resources with information on 2Q8F
  • Community annotation for 2Q8F at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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