3OFN Hydrolase date Aug 15, 2010
title Structure Of Four Mutant Forms Of Yeast F1 Atpase: Alpha-N67
authors D.Arsenieva, J.Symersky, Y.Wang, V.Pagadala, D.M.Mueller
compound source
Molecule: Atp Synthase Subunit Alpha
Chain: A, B, C, J, K, L, S, T, U
Fragment: Unp Residues 36-545
Ec: 3.6.3.14
Engineered: Yes
Mutation: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932
Gene: Atp1, Ybl0827, Ybl099w
Expression_system: Saccharomyces Cerevisiae
Expression_system_taxid: 4932

Molecule: Atp Synthase Subunit Beta
Chain: D, E, F, M, N, O, V, W, X
Fragment: Unp Residues 34-511
Ec: 3.6.3.14
Engineered: Yes

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932
Gene: Atp2, J2041, Yjr121w
Expression_system: Saccharomyces Cerevisiae
Expression_system_taxid: 4932

Molecule: Atp Synthase Subunit Gamma
Chain: G, P, Y
Fragment: Unp Residues 34-311
Synonym: F-Atpase Gamma Subunit
Ec: 3.6.3.14
Engineered: Yes

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932
Gene: Atp3, Atp3a, Atp3b, Ybr039w, Ybr0408
Expression_system: Saccharomyces Cerevisiae
Expression_system_taxid: 4932

Molecule: Atp Synthase Subunit Delta
Chain: H, Q
Fragment: Unp Residues 23-160
Synonym: F-Atpase Delta Subunit
Ec: 3.6.3.14
Engineered: Yes

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932
Gene: Atp16, D2935, Yd8119.03, Ydl004w
Expression_system: Saccharomyces Cerevisiae
Expression_system_taxid: 4932

Molecule: Atp Synthase Subunit Epsilon
Chain: I, R
Fragment: Unp Residues 2-62
Synonym: Atpase Subunit Epsilon
Ec: 3.6.3.14
Engineered: Yes

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932
Gene: Atp15, P0345, Ypl271w
Expression_system: Saccharomyces Cerevisiae
Expression_system_taxid: 4932
symmetry Space Group: P 1 21 1
R_factor 0.210 R_Free 0.276
crystal
cell
length a length b length c angle alpha angle beta angle gamma
112.019 290.619 188.465 90.00 102.34 90.00
method X-Ray Diffractionresolution 3.20 Å
ligand ANP, MG enzyme Hydrolase E.C.3.6.3.14 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
F, N, E, V, M, O, W, X, D
  • proton-transporting ATP synt...


  • Q, H


    R, I
  • proton-transporting ATP synt...


  • S, T, K, C, L, A, J, B, U
  • proton-transporting ATP synt...


  • Y, P, G


    Primary referenceCrystal structures of mutant forms of the yeast F1 ATPase reveal two modes of uncoupling., Arsenieva D, Symersky J, Wang Y, Pagadala V, Mueller DM, J Biol Chem. 2010 Sep 14. PMID:20843806
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (2995 Kb) [Save to disk]
  • Biological Unit Coordinates (3ofn.pdb1.gz) 1065 Kb
  • Biological Unit Coordinates (3ofn.pdb2.gz) 1038 Kb
  • Biological Unit Coordinates (3ofn.pdb3.gz) 909 Kb
  • LPC: Ligand-Protein Contacts for 3OFN
  • CSU: Contacts of Structural Units for 3OFN
  • Structure Factors (1535 Kb)
  • Retrieve 3OFN in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3OFN from S2C, [Save to disk]
  • Re-refined 3ofn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3OFN 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 3OFN
  • 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 3OFN, from MSDmotif at EBI
  • Fold representative 3ofn from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ofn_B] [3ofn_M] [3ofn_E] [3ofn] [3ofn_H] [3ofn_N] [3ofn_J] [3ofn_U] [3ofn_P] [3ofn_D] [3ofn_O] [3ofn_Y] [3ofn_F] [3ofn_Q] [3ofn_W] [3ofn_A] [3ofn_L] [3ofn_V] [3ofn_T] [3ofn_I] [3ofn_R] [3ofn_K] [3ofn_C] [3ofn_X] [3ofn_G] [3ofn_S]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3OFN: [AAA ] by SMART
  • Other resources with information on 3OFN
  • Community annotation for 3OFN at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
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  • Images from IMB Jena Image Library of Biological Macromolecules.

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