3U2F - JenaLib

Asymmetric Unit (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Title :   ATP SYNTHASE C10 RING IN PROTON-UNLOCKED CONFORMATION AT PH 8.3

Authors :   J. Symersky, V. Pagadala, D. Osowski, A. Krah, T. Meier, J. Faraldo-Gom D. M. Mueller

Date :   03 Oct 11 (Deposition) - 08 Feb 12 (Release) - 13 Jun 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

Chains :   Asym. Unit : K,L,M,N,O
Biol. Unit 1: K,L,M,N,O  (2x)

Keywords :   F1Fo Atp Synthase, Proton Pore, C10 Ring, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Symersky, V. Pagadala, D. Osowski, A. Krah, T. Meier, J. D. Faraldo-Gomez, D. M. Mueller
Structure Of The C(10) Ring Of The Yeast Mitochondrial Atp Synthase In The Open Conformation.
Nat. Struct. Mol. Biol. V. 19 485 2012
PubMed-ID: 22504883 | Reference-DOI: 10.1038/NSMB.2284

Molecule 1 - ATP SYNTHASE SUBUNIT C, MITOCHONDRIAL
	Chains	:	K, L, M, N, O
	Organism Common	:	BAKER'S YEAST
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE
	Organism Taxid	:	4932
	Synonym	:	LIPID-BINDING PROTEIN

		1	2	3	4	5
Asymmetric Unit	:	K	L	M	N	O
Biological Unit 1 (2x)	:	K	L	M	N	O

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 5)

No.	Name	Count	Type	Full Name
1	FME	5	Mod. Amino Acid	N-FORMYLMETHIONINE

Biological Unit 1 (1, 10)

No.	Name	Count	Type	Full Name
1	FME	10	Mod. Amino Acid	N-FORMYLMETHIONINE

(no "Site" information available for 3U2F)

(no "SS Bond" information available for 3U2F)

(no "Cis Peptide Bond" information available for 3U2F)

Asymmetric Unit (4, 20)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_ATP9_YEAST_001 *	T	46	L	ATP9_YEAST	---	---	K/L/M/N/O	T	46	L
2	UniProt	VAR_ATP9_YEAST_002 *	L	53	F	ATP9_YEAST	---	---	K/L/M/N/O	L	53	F
3	UniProt	VAR_ATP9_YEAST_003 *	L	57	V	ATP9_YEAST	---	---	K/L/M/N/O	L	57	V
4	UniProt	VAR_ATP9_YEAST_004 *	C	65	S	ATP9_YEAST	---	---	K/L/M/N/O	C	65	S
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 1 (4, 40)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_ATP9_YEAST_001 *	T	46	L	ATP9_YEAST	---	---	K/L/M/N/O	T	46	L
2	UniProt	VAR_ATP9_YEAST_002 *	L	53	F	ATP9_YEAST	---	---	K/L/M/N/O	L	53	F
3	UniProt	VAR_ATP9_YEAST_003 *	L	57	V	ATP9_YEAST	---	---	K/L/M/N/O	L	57	V
4	UniProt	VAR_ATP9_YEAST_004 *	C	65	S	ATP9_YEAST	---	---	K/L/M/N/O	C	65	S
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Asymmetric Unit (1, 5)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ATPASE_C	PS00605	ATP synthase c subunit signature.	ATP9_YEAST	38-59	5	K:38-59 L:38-59 M:38-59 N:38-59 O:38-59

Biological Unit 1 (1, 10)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ATPASE_C	PS00605	ATP synthase c subunit signature.	ATP9_YEAST	38-59	10	K:38-59 L:38-59 M:38-59 N:38-59 O:38-59

(no "Exon" information available for 3U2F)

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain K from PDB  Type:PROTEIN  Length:74
 aligned with ATP9_YEAST | P61829 from UniProtKB/Swiss-Prot  Length:76

    Alignment length:74
                                    10        20        30        40        50        60        70    
            ATP9_YEAST    1 MQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLF 74
               SCOP domains -------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------L------F---V-------S--------- SAPs(SNPs)
                    PROSITE -------------------------------------ATPASE_C  PDB: K:38-59--------------- PROSITE
                 Transcript -------------------------------------------------------------------------- Transcript
                  3u2f K  1 mQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLF 74
                            |       10        20        30        40        50        60        70    
                            |                                                                         
                            1-FME

Chain L from PDB  Type:PROTEIN  Length:74
 aligned with ATP9_YEAST | P61829 from UniProtKB/Swiss-Prot  Length:76

    Alignment length:74
                                    10        20        30        40        50        60        70    
            ATP9_YEAST    1 MQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLF 74
               SCOP domains -------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------L------F---V-------S--------- SAPs(SNPs)
                    PROSITE -------------------------------------ATPASE_C  PDB: L:38-59--------------- PROSITE
                 Transcript -------------------------------------------------------------------------- Transcript
                  3u2f L  1 mQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLF 74
                            |       10        20        30        40        50        60        70    
                            1-FME

Chain M from PDB  Type:PROTEIN  Length:75
 aligned with ATP9_YEAST | P61829 from UniProtKB/Swiss-Prot  Length:76

    Alignment length:75
                                    10        20        30        40        50        60        70     
            ATP9_YEAST    1 MQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLFG 75
               SCOP domains --------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------L------F---V-------S---------- SAPs(SNPs)
                    PROSITE -------------------------------------ATPASE_C  PDB: M:38-59---------------- PROSITE
                 Transcript --------------------------------------------------------------------------- Transcript
                  3u2f M  1 mQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLFG 75
                            |       10        20        30        40        50        60        70     
                            1-FME

Chain N from PDB  Type:PROTEIN  Length:74
 aligned with ATP9_YEAST | P61829 from UniProtKB/Swiss-Prot  Length:76

    Alignment length:74
                                    10        20        30        40        50        60        70    
            ATP9_YEAST    1 MQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLF 74
               SCOP domains -------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------L------F---V-------S--------- SAPs(SNPs)
                    PROSITE -------------------------------------ATPASE_C  PDB: N:38-59--------------- PROSITE
                 Transcript -------------------------------------------------------------------------- Transcript
                  3u2f N  1 mQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLF 74
                            |       10        20        30        40        50        60        70    
                            1-FME

Chain O from PDB  Type:PROTEIN  Length:74
 aligned with ATP9_YEAST | P61829 from UniProtKB/Swiss-Prot  Length:76

    Alignment length:74
                                    10        20        30        40        50        60        70    
            ATP9_YEAST    1 MQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLF 74
               SCOP domains -------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------L------F---V-------S--------- SAPs(SNPs)
                    PROSITE -------------------------------------ATPASE_C  PDB: O:38-59--------------- PROSITE
                 Transcript -------------------------------------------------------------------------- Transcript
                  3u2f O  1 mQLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFCLMVSFLLLF 74
                            |       10        20        30        40        50        60        70    
                            1-FME

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

(no "SCOP Domain" information available for 3U2F)

(no "CATH Domain" information available for 3U2F)

(no "Pfam Domain" information available for 3U2F)

Asymmetric Unit(hide GO term definitions)

Chain K,L,M,N,O (ATP9_YEAST | P61829)

molecular function
	GO:0016887	ATPase activity	Catalysis of the reaction: ATP + H2O = ADP + phosphate + 2 H+. May or may not be coupled to another reaction.
	GO:0015078	hydrogen ion transmembrane transporter activity	Enables the transfer of hydrogen ions from one side of a membrane to the other.
	GO:0008289	lipid binding	Interacting selectively and non-covalently with a lipid.
	GO:0046933	proton-transporting ATP synthase activity, rotational mechanism	Catalysis of the transfer of protons from one side of a membrane to the other according to the reaction: ADP + H2O + phosphate + H+(in) = ATP + H+(out), by a rotational mechanism.
biological process
	GO:0015991	ATP hydrolysis coupled proton transport	The transport of protons against an electrochemical gradient, using energy from ATP hydrolysis.
	GO:0015986	ATP synthesis coupled proton transport	The transport of protons across a membrane to generate an electrochemical gradient (proton-motive force) that powers ATP synthesis.
	GO:0006811	ion transport	The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0006626	protein targeting to mitochondrion	The process of directing proteins towards and into the mitochondrion, usually mediated by mitochondrial proteins that recognize signals contained within the imported protein.
	GO:0015992	proton transport	The directed movement of protons (hydrogen ions) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0006810	transport	The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005743	mitochondrial inner membrane	The inner, i.e. lumen-facing, lipid bilayer of the mitochondrial envelope. It is highly folded to form cristae.
	GO:0005758	mitochondrial intermembrane space	The region between the inner and outer lipid bilayers of the mitochondrial envelope.
	GO:0031966	mitochondrial membrane	Either of the lipid bilayers that surround the mitochondrion and form the mitochondrial envelope.
	GO:0000276	mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)	All non-F1 subunits of the mitochondrial hydrogen-transporting ATP synthase, including integral and peripheral mitochondrial inner membrane proteins.
	GO:0005739	mitochondrion	A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.
	GO:0045263	proton-transporting ATP synthase complex, coupling factor F(o)	All non-F1 subunits of a hydrogen-transporting ATP synthase, including integral and peripheral membrane proteins.
	GO:0033177	proton-transporting two-sector ATPase complex, proton-transporting domain	A protein complex that forms part of a proton-transporting two-sector ATPase complex and carries out proton transport across a membrane. The proton-transporting domain (F0, V0, or A0) includes integral and peripheral membrane proteins.

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	ATP9_YEAST \| P61829	:	2wpd 2xok 3u2y 3u32 3ud0 3zry 4b2q 4f4s 5bps 5bq6 5bqa 5bqj

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Ligands, Modified Residues, Ions (1, 5)

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