2WPD Hydrolase date Aug 05, 2009
title The Mg.Adp Inhibited State Of The Yeast F1c10 Atp Synthase
authors A.Dautant, J.Velours, M.F.Giraud
compound source
Molecule: Atp Synthase Subunit Alpha, Mitochondrial
Chain: A, B, C
Synonym: Atp Synthase Alpha Chain\, Mitochondrial
 Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Strain: D273-10ba

Molecule: Atp Synthase Subunit Beta, Mitochondrial
Chain: D, E, F
Synonym: Atp Synthase Beta Chain\, Mitochondrial
Ec: 3.6.3.14
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Strain: D273-10ba

Molecule: Atp Synthase Subunit Gamma, Mitochondrial
Chain: G
Synonym: Atp Synthase Gamma Chain\,Mitochondrial, F-Atpase Subunit;
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Strain: D273-10ba

Molecule: Atp Synthase Subunit Delta, Mitochondrial
Chain: H
Synonym: Atp Synthase Delta Chain\,Mitochondrial, F-Atpase Subunit;
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Strain: D273-10ba

Molecule: Atp Synthase Subunit Epsilon, Mitochondrial
Chain: I
Fragment: Residues 2-62
Synonym: Atp Synthase Epsilon Chain\, Mitochondrial
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Strain: D273-10ba

Molecule: Atp Synthase Subunit 9, Mitochondrial
Chain: J, K, L, M, N, O, P, Q, R, S
Synonym: Atp Synthase 9 Chain\,Mitochondrial, Lipid-Binding Oligomycin Resistance Protein 1;
Ec: 3.6.3.14
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Strain: D273-10ba
symmetry Space Group: P 1 21 1
R_factor 0.286 R_Free 0.297
crystal
cell
length a length b length c angle alpha angle beta angle gamma
134.990 173.944 137.016 90.00 92.69 90.00
method X-Ray Diffractionresolution 3.43 Å
ligand ADP, ATP, MG enzyme Hydrolase E.C.3.6.3.14 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
C, A, B


F, E, D


G


H


I


S, N, K, Q, M, L, J, O, P, R


Primary referenceCrystal structure of the Mg.ADP-inhibited state of the yeast F1c10-ATP synthase., Dautant A, Velours J, Giraud MF, J Biol Chem. 2010 Sep 17;285(38):29502-10. Epub 2010 Jul 7. PMID:20610387
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (524 Kb) [Save to disk]
  • Biological Unit Coordinates (2wpd.pdb1.gz) 517 Kb
  • LPC: Ligand-Protein Contacts for 2WPD
  • CSU: Contacts of Structural Units for 2WPD
  • Structure Factors (670 Kb)
  • Retrieve 2WPD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2WPD from S2C, [Save to disk]
  • Re-refined 2wpd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2WPD 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 2WPD
  • 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
  • 3D motif for 2WPD, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2wpd_Q] [2wpd_H] [2wpd_D] [2wpd_J] [2wpd_K] [2wpd_G] [2wpd_S] [2wpd_C] [2wpd_A] [2wpd_B] [2wpd_F] [2wpd_L] [2wpd_E] [2wpd_I] [2wpd] [2wpd_O] [2wpd_R] [2wpd_M] [2wpd_N] [2wpd_P]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 2WPD: [AAA ] by SMART
    • Other resources with information on 2WPD
  • Community annotation for 2WPD 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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