2OZL Oxidoreductase date Feb 26, 2007
title Human Pyruvate Dehydrogenase S264e Variant
authors E.M.Ciszak, P.M.Dominiak, M.S.Patel, L.G.Korotchkina
compound source
Molecule: Pyruvate Dehydrogenase E1 Component Alpha Subunit, Somatic Form;
Chain: A, C
Fragment: Alpha Subunit
Synonym: Pdhe1-A Type I
Ec: 1.2.4.1
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pdha1, Phe1a
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet21

Molecule: Pyruvate Dehydrogenase E1 Component Subunit Beta
Chain: B, D
Fragment: Beta Subunit
Synonym: Pdhe1-B
Ec: 1.2.4.1
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pdhb, Phe1b
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet21
symmetry Space Group: P 21 21 21
R_factor 0.186 R_Free 0.221
crystal
cell
length a length b length c angle alpha angle beta angle gamma
64.900 126.400 190.400 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand K, MG, TPP enzyme Oxidoreductase E.C.1.2.4.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Primary referencePhosphorylation of Serine 264 Impedes Active Site Accessibility in the E1 Component of the Human Pyruvate Dehydrogenase Multienzyme Complex., Seifert F, Ciszak E, Korotchkina L, Golbik R, Spinka M, Dominiak P, Sidhu S, Brauer J, Patel MS, Tittmann K, Biochemistry. 2007 May 29;46(21):6277-6287. Epub 2007 May 3. PMID:17474719
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (238 Kb) [Save to disk]
  • Biological Unit Coordinates (2ozl.pdb1.gz) 232 Kb
  • LPC: Ligand-Protein Contacts for 2OZL
  • CSU: Contacts of Structural Units for 2OZL
  • Likely Quarternary Molecular Structure file(s) for 2OZL
  • Structure Factors (1704 Kb)
  • Retrieve 2OZL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2OZL from S2C, [Save to disk]
  • Re-refined 2ozl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2OZL 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 2OZL
  • 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 2OZL, from MSDmotif at EBI
  • Fold representative 2ozl from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ozl]
  • SWISS-PROT database: [P08559] [P11177]
  • Domain organization of [ODPA_HUMAN] [ODPB_HUMAN] by SWISSPFAM
  • Domain found in 2OZL: [Transket_pyr ] by SMART
  • Alignments of the sequence of 2OZL with the sequences similar proteins can be viewed for 2OZL's classification [ODPA_HUMAN] [ODPB_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [ODPA_HUMAN] [ODPB_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2OZL
  • Community annotation for 2OZL 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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