1ZY8 Oxidoreductase date Jun 09, 2005
title The Crystal Structure Of Dihydrolipoamide Dehydrogenase And Dihydrolipoamide Dehydrogenase-Binding Protein (Didomain) Subcomplex Of Human Pyruvate Dehydrogenase Complex.
authors E.M.Ciszak, A.Makal, Y.S.Hong, A.K.Vettaikkorumakankauv, L.G.Korotchkina, M.S.Patel
compound source
Molecule: Dihydrolipoyl Dehydrogenase, Mitochondrial
Chain: A, B, C, D, E, F, G, H, I, J
Synonym: Dihydrolipoamide Dehydrogenase, Glycine Cleavage System L Protein;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dld, Gcsl, Lad, Phe3
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Xl1_blue
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Proex-1

Molecule: Pyruvate Dehydrogenase Protein X Component, Mitochondrial;
Chain: K, L, M, N, O
Fragment: Didomain (Lipoyl And E3-Binding Domain)
Synonym: Dihydrolipoamide Dehydrogenase-Binding Protein Of Pyruvate Dehydrogenase Complex, Lipoyl-Containing Pyruvate Dehydrogenase Complex Component X, E3-Binding Protein, E3bp, Prox;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pdhx, Pdx1
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a
symmetry Space Group: P 21 21 21
R_factor 0.208 R_Free 0.276
length a length b length c angle alpha angle beta angle gamma
168.790 186.910 217.540 90.00 90.00 90.00
method X-Ray Diffraction, 2 Modelsresolution 2.59 Å
ligand FAD enzyme Oxidoreductase E.C. BRENDA
F, A, J, E, B, H, C, D, I, G
  • pyruvate dehydrogenase (NAD+...
  • cell redox homeostasis

  • N, K, M, L

    Primary referenceHow dihydrolipoamide dehydrogenase-binding protein binds dihydrolipoamide dehydrogenase in human pyruvate dehydrogenase complex., Ciszak EM, Makal A, Hong YS, Vettaikkorumakankauv AK, Korotchkina LG, Patel MS, J Biol Chem 2005 Nov 1;. PMID:16263718
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1527 Kb) [Save to disk]
  • Biological Unit Coordinates (1zy8.pdb1.gz) 163 Kb
  • Biological Unit Coordinates (1zy8.pdb2.gz) 164 Kb
  • Biological Unit Coordinates (1zy8.pdb3.gz) 163 Kb
  • Biological Unit Coordinates (1zy8.pdb4.gz) 163 Kb
  • Biological Unit Coordinates (1zy8.pdb5.gz) 162 Kb
  • LPC: Ligand-Protein Contacts for 1ZY8
  • CSU: Contacts of Structural Units for 1ZY8
  • Likely Quarternary Molecular Structure file(s) for 1ZY8
  • Structure Factors (2525 Kb)
  • Retrieve 1ZY8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1ZY8 from S2C, [Save to disk]
  • View 1ZY8 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 1ZY8
  • 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
  • Fold representative 1zy8 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1zy8_F] [1zy8_K] [1zy8] [1zy8_G] [1zy8_M] [1zy8_A] [1zy8_D] [1zy8_E] [1zy8_O] [1zy8_H] [1zy8_L] [1zy8_N] [1zy8_B] [1zy8_I] [1zy8_C] [1zy8_J]
  • SWISS-PROT database: [P09622] [O00330]
  • Domain organization of [DLDH_HUMAN] [ODPX_HUMAN] by SWISSPFAM
  • Other resources with information on 1ZY8
  • Community annotation for 1ZY8 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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