SUPERFAMILY 1.75 HMM library and genome assignments server


C-terminal domain of alpha and beta subunits of F1 ATP synthase superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Left-handed superhelix [ 47916] (4)
Superfamily:   C-terminal domain of alpha and beta subunits of F1 ATP synthase [ 47917]
Families:   C-terminal domain of alpha and beta subunits of F1 ATP synthase [ 47918] (2)


Superfamily statistics
Genomes (3,121) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 7,957 49,460 12
Proteins 7,950 49,456 12


Functional annotation
General category Metabolism
Detailed category Energy

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

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GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) localization 2.458e-07 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 2.528e-05 Least Informative Direct
Biological Process (BP) single-organism metabolic process 2.836e-05 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 3.282e-05 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 9.798e-05 Least Informative Direct
Biological Process (BP) biosynthetic process 0.0006363 Least Informative Direct
Biological Process (BP) single-organism cellular process 0.6095 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 0.001477 Least Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 4.584e-13 Moderately Informative Direct
Biological Process (BP) organophosphate metabolic process 1.155e-11 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 2.026e-10 Moderately Informative Direct
Biological Process (BP) organonitrogen compound biosynthetic process 7.529e-10 Moderately Informative Direct
Biological Process (BP) cellular nitrogen compound biosynthetic process 1.036e-08 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 1.261e-08 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 1.508e-08 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 7.08e-08 Moderately Informative Direct
Biological Process (BP) phosphate-containing compound metabolic process 3.179e-07 Moderately Informative Direct
Biological Process (BP) ion transport 7.915e-06 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.04721 Moderately Informative Inherited
Biological Process (BP) purine-containing compound biosynthetic process 0 Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 0 Informative Direct
Biological Process (BP) ribose phosphate biosynthetic process 0 Informative Direct
Biological Process (BP) glycosyl compound biosynthetic process 0 Informative Direct
Biological Process (BP) purine ribonucleotide metabolic process 0 Informative Direct
Biological Process (BP) transmembrane transport 7.743e-12 Informative Direct
Biological Process (BP) cellular chemical homeostasis 3.883e-08 Informative Direct
Biological Process (BP) cation homeostasis 5.716e-08 Informative Direct
Biological Process (BP) nucleotide biosynthetic process 7.048e-08 Informative Direct
Biological Process (BP) nucleoside monophosphate metabolic process 4.47e-07 Informative Direct
Biological Process (BP) nucleoside triphosphate metabolic process 5.668e-05 Informative Direct
Biological Process (BP) purine ribonucleoside monophosphate metabolic process 0 Highly Informative Direct
Biological Process (BP) purine ribonucleoside triphosphate metabolic process 0 Highly Informative Direct
Biological Process (BP) hydrogen transport 0 Highly Informative Direct
Biological Process (BP) nucleoside monophosphate biosynthetic process 0 Highly Informative Direct
Biological Process (BP) purine nucleoside triphosphate biosynthetic process 0 Highly Informative Direct
Biological Process (BP) ribonucleoside triphosphate biosynthetic process 1.938e-15 Highly Informative Direct
Biological Process (BP) monovalent inorganic cation homeostasis 2.075e-06 Highly Informative Direct
Biological Process (BP) monovalent inorganic cation transport 3.82e-06 Highly Informative Direct
Molecular Function (MF) hydrolase activity 9.428e-08 Least Informative Direct
Molecular Function (MF) binding 0.1963 Least Informative Inherited
Molecular Function (MF) transporter activity 1.272e-13 Moderately Informative Direct
Molecular Function (MF) anion binding 0.1626 Moderately Informative Inherited
Molecular Function (MF) inorganic cation transmembrane transporter activity 0 Informative Direct
Molecular Function (MF) nucleoside-triphosphatase activity 0 Informative Direct
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances 8.006e-16 Informative Direct
Molecular Function (MF) active transmembrane transporter activity 8.523e-10 Informative Direct
Molecular Function (MF) purine ribonucleoside binding 2.985e-07 Informative Direct
Molecular Function (MF) nucleotide binding 5.585e-06 Informative Direct
Molecular Function (MF) purine ribonucleoside triphosphate binding 0.0008353 Informative Direct
Molecular Function (MF) hydrogen ion transmembrane transporter activity 0 Highly Informative Direct
Molecular Function (MF) ATPase activity, coupled to transmembrane movement of ions 0 Highly Informative Direct
Cellular Component (CC) membrane 0 Least Informative Direct
Cellular Component (CC) protein complex 3.095e-15 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 7.454e-09 Least Informative Direct
Cellular Component (CC) cytoplasmic part 4.06e-07 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.01381 Least Informative Inherited
Cellular Component (CC) organelle membrane 0 Moderately Informative Direct
Cellular Component (CC) organelle envelope 0 Moderately Informative Direct
Cellular Component (CC) mitochondrial part 7.373e-14 Moderately Informative Direct
Cellular Component (CC) mitochondrial membrane part 0 Informative Direct
Cellular Component (CC) vacuolar part 1.426e-05 Informative Direct
Cellular Component (CC) mitochondrial proton-transporting ATP synthase complex 5.547e-13 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

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EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on acid anhydrides0Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; catalyzing transmembran0InformativeDirect
Enzyme Commission (EC)H(+)-transporting two-sector ATPase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Worm Phenotype (WP)

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WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell physiology variant0Least InformativeDirect
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect
Worm Phenotype (WP)developmental timing variant0Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant0Least InformativeDirect
Worm Phenotype (WP)organ system development variant0Moderately InformativeDirect
Worm Phenotype (WP)cell organization biogenesis variant0Moderately InformativeDirect
Worm Phenotype (WP)gametogenesis variant0Moderately InformativeDirect
Worm Phenotype (WP)pattern of transgene expression variant0Moderately InformativeDirect
Worm Phenotype (WP)reproductive system morphology variant0Moderately InformativeDirect
Worm Phenotype (WP)cell death variant0Moderately InformativeDirect
Worm Phenotype (WP)germ cell morphology variant0Moderately InformativeDirect
Worm Phenotype (WP)protein aggregation variant0Moderately InformativeDirect
Worm Phenotype (WP)diplotene progression during oogenesis variant0InformativeDirect
Worm Phenotype (WP)somatic gonad development variant0InformativeDirect
Worm Phenotype (WP)diplotene region organization variant0Highly InformativeDirect
Worm Phenotype (WP)cell membrane organization biogenesis variant0Highly InformativeDirect
Worm Phenotype (WP)oocyte septum formation variant0Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

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YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect
Yeast Phenotype (YP)metabolism and growth0Least InformativeDirect
Yeast Phenotype (YP)morphology0Moderately InformativeDirect
Yeast Phenotype (YP)nutrient utilization0Moderately InformativeDirect
Yeast Phenotype (YP)lifespan0InformativeDirect
Yeast Phenotype (YP)chemical compound accumulation0InformativeDirect
Yeast Phenotype (YP)utilization of carbon source0InformativeDirect
Yeast Phenotype (YP)vegetative growth0InformativeDirect
Yeast Phenotype (YP)respiratory growth0Highly InformativeDirect
Yeast Phenotype (YP)chronological lifespan0Highly InformativeDirect
Yeast Phenotype (YP)desiccation resistance0Highly InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

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FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)viable0Least InformativeDirect
Fly Phenotype (FP)increased mortality0Least InformativeDirect
Fly Phenotype (FP)sterile0InformativeDirect

Document: FP annotation of SCOP domains

Xenopus Anatomy (XA)

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XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)embryo0Least InformativeDirect
Xenopus ANatomical entity (XAN)viscus0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0Least InformativeDirect
Xenopus ANatomical entity (XAN)alimentary system0Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)cell0Least InformativeDirect
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)central nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)multi-tissue structure0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)endomesoderm0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)ectoderm0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)intestine0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)visual system0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)surface structure0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)immune system0Moderately InformativeDirect
Xenopus ANatomical entity (XAN)lung0InformativeDirect
Xenopus ANatomical entity (XAN)kidney0InformativeDirect
Xenopus ANatomical entity (XAN)skin0InformativeDirect
Xenopus ANatomical entity (XAN)limb0InformativeDirect
Xenopus ANatomical entity (XAN)spleen0InformativeDirect
Xenopus ANatomical entity (XAN)heart0InformativeDirect
Xenopus ANatomical entity (XAN)mesonephric kidney0Highly InformativeDirect
Xenopus ANatomical entity (XAN)germ cell0Highly InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

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AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)whole plant0Least InformativeDirect
Plant ANatomical entity (PAN)guard cell0Least InformativeDirect
Plant ANatomical entity (PAN)microsporophyll0Least InformativeDirect
Plant ANatomical entity (PAN)sporangium0Least InformativeDirect
Plant structure DEvelopment stage (PDE)seed development stage0InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

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EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0Least InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides0Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; catalyzing transmembrane movement of substances0Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

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KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processIon transport0Moderately InformativeDirect
Biological processATP synthesis0Highly InformativeDirect
Biological processHydrogen ion transport0Highly InformativeDirect
Biological processIntron homing9.494e-05Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentPlastid0Moderately InformativeDirect
Cellular componentCell membrane0Moderately InformativeDirect
Cellular componentMitochondrion1Moderately InformativeInherited
Cellular componentThylakoid0InformativeDirect
Cellular componentCell inner membrane0InformativeDirect
Cellular componentMitochondrion inner membrane9.558e-10InformativeDirect
Cellular componentCF(1)0Highly InformativeDirect
Coding sequence diversityRNA editing0.0007479Moderately InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionATP-binding0Moderately InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationAutocatalytic cleavage0.5718InformativeInherited
Post-translational modificationProtein splicing8.217e-09Highly InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR000793 SSF47917 Protein matches
Abstract

This entry represents the alpha and beta subunits found in the F1, V1, and A1 complexes of F-, V- and A-ATPases, respectively (sometimes called the A and B subunits in V- and A-ATPases). The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [PubMed11309608, PubMed15629643].

In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself is driven by the movement of protons through the F0 complex C subunit [PubMed12745923].

In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory.

The alpha/A and beta/B subunits can each be divided into three regions, or domains, centred around the ATP-binding pocket, and based on structure and function, where the central region is the nucleotide-binding domain [PubMed12885621]. This entry represents the C-terminal domain of the alpha/A/beta/B subunits, which forms a left-handed superhelix composed of 4-5 individual helices. The C-terminal domain can vary between the alpha and beta subunits, and between different ATPases [PubMed11309608].

More information about this protein can be found at Protein of the Month: ATP Synthases.


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 6 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a C-terminal domain of alpha and beta subunits of F1 ATP synthase domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 6 hidden Markov models representing the C-terminal domain of alpha and beta subunits of F1 ATP synthase superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]