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 Diffraction	resolution	3.20 Å
ligand	ANP, MG	enzyme	Hydrolase E.C.3.6.3.14 BRENDA
Gene Ontology	Chain Function Process Component F, N, E, V, M, O, W, X, D nucleotide binding ATP binding hydrolase activity hydrolase activity, acting o... ATPase activity nucleoside-triphosphatase ac... proton-transporting ATP synt... proton-transporting ATPase a... ATP catabolic process ATP biosynthetic process transport ion transport ATP synthesis coupled proton... ATP hydrolysis coupled proto... proton transport ATP metabolic process mitochondrion mitochondrial inner membrane... mitochondrial proton-transpo... mitochondrial intermembrane ... cytosol membrane integral to membrane proton-transporting two-sect... proton-transporting ATP synt... Q, H, R, I hydrolase activity ATPase activity proton-transporting ATP synt... proton-transporting ATPase a... ATP catabolic process ATP biosynthetic process transport ion transport ATP synthesis coupled proton... proton transport mitochondrion mitochondrial inner membrane... mitochondrial proton-transpo... membrane integral to membrane proton-transporting ATP synt... S, T, K, C, L, A, J, B, U nucleotide binding ATP binding hydrolase activity, acting o... ATPase activity proton-transporting ATP synt... proton-transporting ATPase a... ATP catabolic process ATP biosynthetic process transport ion transport ATP synthesis coupled proton... ATP hydrolysis coupled proto... proton transport ATP metabolic process mitochondrion mitochondrial inner membrane... mitochondrial proton-transpo... mitochondrial intermembrane ... cytosol membrane integral to membrane proton-transporting two-sect... mitochondrial nucleoid proton-transporting ATP synt... Y, P, G proton-transporting ATP synt... proton-transporting ATPase a... ATP biosynthetic process transport ion transport ATP synthesis coupled proton... proton transport mitochondrion mitochondrial inner membrane... mitochondrial proton-transpo... membrane integral to membrane proton-transporting ATP synt...
Primary reference	Crystal 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

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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_A] [3ofn_B] [3ofn_C] [3ofn_D] [3ofn_E] [3ofn_F] [3ofn_G] [3ofn_H] [3ofn_I] [3ofn_J] [3ofn_K] [3ofn_L] [3ofn_M] [3ofn_N] [3ofn_O] [3ofn_P] [3ofn_Q] [3ofn_R] [3ofn_S] [3ofn_T] [3ofn_U] [3ofn_V] [3ofn_W] [3ofn_X] [3ofn_Y] SWISS-PROT database: Domain organization of by SWISSPFAM Alignments of the sequence of 3OFN with the sequences similar proteins can be viewed for 3OFN's classification 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 at ProtoMap. Click on the Cluster number.

Other resources with information on 3OFN

Community annotation for 3OFN at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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