2Q8I Transferase date Jun 10, 2007
title Pyruvate Dehydrogenase Kinase Isoform 3 In Complex With Anti Radicicol
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 3
Ec: 2.7.11.2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pdk3
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid

Molecule: Dihydrolipoyllysine-Residue Acetyltransferase Com Pyruvate Dehydrogenase Complex;
Chain: B
Fragment: Lipoyl-Bearing Domain
Synonym: Pyruvate Dehydrogenase Complex E2 Subunit, Pdce2, Dihydrolipoamide S-Acetyltransferase Component Of Pyruvate Dehydrogenase Complex, Pdc-E2, 70 Kda Mitochondrial Autoant Primary Biliary Cirrhosis, Pbc, M2 Antigen Complex 70 Kda S
Ec: 2.3.1.12
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dlat, Dlta
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
symmetry Space Group: P 65 2 2
R_factor 0.205 R_Free 0.238
crystal
cell
length a length b length c angle alpha angle beta angle gamma
120.872 120.872 239.637 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.60 Å
ligand GOL, K, RDC, RED enzyme Transferase E.C.2.7.11.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


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] (86 Kb) [Save to disk]
  • Biological Unit Coordinates (2q8i.pdb1.gz) 156 Kb
  • LPC: Ligand-Protein Contacts for 2Q8I
  • CSU: Contacts of Structural Units for 2Q8I
  • Likely Quarternary Molecular Structure file(s) for 2Q8I
  • Structure Factors (251 Kb)
  • Retrieve 2Q8I in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2Q8I from S2C, [Save to disk]
  • Re-refined 2q8i structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2Q8I 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 2Q8I
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2Q8I, from MSDmotif at EBI
  • Fold representative 2q8i from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2q8i_B] [2q8i] [2q8i_A]
  • SWISS-PROT database: [P10515] [Q15120]
  • Domain organization of [ODP2_HUMAN] [PDK3_HUMAN] by SWISSPFAM
  • Domain found in 2Q8I: [HATPase_c ] by SMART
  • Other resources with information on 2Q8I
  • Community annotation for 2Q8I 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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