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

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All beta proteins [ 48724] (174)
Fold:   Domain of alpha and beta subunits of F1 ATP synthase-like [ 50614] (3)
Superfamily:   N-terminal domain of alpha and beta subunits of F1 ATP synthase [ 50615]
Families:   N-terminal domain of alpha and beta subunits of F1 ATP synthase [ 50616] (2)


Superfamily statistics
Genomes (3,120) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 7,639 57,315 12
Proteins 7,634 57,302 12


Functional annotation
General category Processes_IC
Detailed category Transport

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) organonitrogen compound metabolic process 0.08051 Least Informative Inherited
Biological Process (BP) biosynthetic process 0.01156 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.03084 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) response to stimulus 0.8902 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 0.008296 Least Informative Inherited
Biological Process (BP) primary metabolic process 0.5188 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.005524 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 0.007984 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.002061 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.002359 Least Informative Inherited
Biological Process (BP) purine-containing compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) nucleoside phosphate metabolic process 0.00000000000002436 Moderately Informative Direct
Biological Process (BP) organophosphate biosynthetic process 0.0000000000004088 Moderately Informative Direct
Biological Process (BP) carbohydrate derivative metabolic process 0.000000001018 Moderately Informative Direct
Biological Process (BP) aromatic compound biosynthetic process 0.00000002082 Moderately Informative Direct
Biological Process (BP) heterocycle biosynthetic process 0.00000003927 Moderately Informative Direct
Biological Process (BP) ion transport 0.00000006881 Moderately Informative Direct
Biological Process (BP) organic cyclic compound biosynthetic process 0.0000002429 Moderately Informative Direct
Biological Process (BP) single-organism transport 0.00304 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.06641 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.002646 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.003593 Moderately Informative Inherited
Biological Process (BP) ATP metabolic process 0 Informative Direct
Biological Process (BP) purine-containing compound biosynthetic process 0 Informative Direct
Biological Process (BP) cation homeostasis 0.000000000003174 Informative Direct
Biological Process (BP) ribose phosphate biosynthetic process 0.000000000003852 Informative Direct
Biological Process (BP) transmembrane transport 0.0000000002755 Informative Direct
Biological Process (BP) nucleotide biosynthetic process 0.00001527 Informative Direct
Biological Process (BP) cellular chemical homeostasis 0.0004566 Informative Direct
Biological Process (BP) inorganic ion homeostasis 0.5183 Informative Inherited
Biological Process (BP) inorganic cation transmembrane transport 0 Highly Informative Direct
Biological Process (BP) pH reduction 0.00000000001012 Highly Informative Direct
Biological Process (BP) nucleoside triphosphate biosynthetic process 0.00000000001676 Highly Informative Direct
Biological Process (BP) proton transport 0.00000000005964 Highly Informative Direct
Biological Process (BP) regulation of intracellular pH 0.0000000003628 Highly Informative Direct
Biological Process (BP) purine ribonucleoside monophosphate biosynthetic process 0.00000001796 Highly Informative Direct
Biological Process (BP) transition metal ion homeostasis 0.00374 Highly Informative Inherited
Molecular Function (MF) hydrolase activity 0.00002221 Least Informative Direct
Molecular Function (MF) binding 0.5602 Least Informative Inherited
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0.0000000000000402 Moderately Informative Direct
Molecular Function (MF) transporter activity 0.0000000006357 Moderately Informative Direct
Molecular Function (MF) carbohydrate derivative binding 0.004724 Moderately Informative Inherited
Molecular Function (MF) small molecule binding 0.02081 Moderately Informative Inherited
Molecular Function (MF) P-P-bond-hydrolysis-driven transmembrane transporter activity 0 Informative Direct
Molecular Function (MF) ATPase activity 0 Informative Direct
Molecular Function (MF) monovalent inorganic cation transmembrane transporter activity 0 Informative Direct
Molecular Function (MF) active ion transmembrane transporter activity 0.00000000000000397 Informative Direct
Molecular Function (MF) hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances 0.000000001415 Informative Direct
Molecular Function (MF) purine nucleotide binding 0.0006363 Informative Direct
Molecular Function (MF) ribonucleotide binding 0.0007328 Informative Direct
Molecular Function (MF) ATPase coupled ion transmembrane transporter activity 0 Highly Informative Direct
Cellular Component (CC) protein complex 0 Least Informative Direct
Cellular Component (CC) membrane 0 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.00001009 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.00003695 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.01443 Least Informative Inherited
Cellular Component (CC) organelle inner membrane 0 Moderately Informative Direct
Cellular Component (CC) mitochondrial protein complex 0 Moderately Informative Direct
Cellular Component (CC) membrane protein complex 0.00000000000001728 Moderately Informative Direct
Cellular Component (CC) plasma membrane 0.00000005437 Moderately Informative Direct
Cellular Component (CC) mitochondrial envelope 0.00002509 Moderately Informative Direct
Cellular Component (CC) vacuole 0.00003076 Moderately Informative Direct
Cellular Component (CC) whole membrane 0.5018 Moderately Informative Inherited
Cellular Component (CC) bounding membrane of organelle 1 Moderately Informative Inherited
Cellular Component (CC) proton-transporting two-sector ATPase complex 0 Informative Direct
Cellular Component (CC) apical part of cell 0 Informative Direct
Cellular Component (CC) plasma membrane region 0.0000000001594 Informative Direct
Cellular Component (CC) inner mitochondrial membrane protein complex 0.00000001097 Informative Direct
Cellular Component (CC) vacuolar part 0.000003725 Informative Direct
Cellular Component (CC) plastid 0.002537 Informative Inherited
Cellular Component (CC) external encapsulating structure 0.02385 Informative Inherited
Cellular Component (CC) apical plasma membrane 0 Highly Informative Direct
Cellular Component (CC) proton-transporting ATP synthase complex, catalytic core F(1) 0 Highly Informative Direct
Cellular Component (CC) mitochondrial proton-transporting ATP synthase complex 0.000004166 Highly Informative Direct

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
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

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processIon transport0Moderately InformativeDirect
Biological processATP synthesis0Highly InformativeDirect
Biological processHydrogen ion transport0Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentPlastid0Moderately InformativeDirect
Cellular componentCell membrane0Moderately InformativeDirect
Cellular componentMitochondrion1Moderately InformativeInherited
Cellular componentThylakoid0InformativeDirect
Cellular componentCell inner membrane0InformativeDirect
Cellular componentMitochondrion inner membrane0.0000000002497InformativeDirect
Cellular componentCF(1)0Highly InformativeDirect
Coding sequence diversityRNA editing0.0005334Moderately InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Post-translational modificationHydrolase0Least InformativeDirect
Post-translational modificationAutocatalytic cleavage0.768InformativeInherited
Post-translational modificationProtein splicing0.00000009558Highly InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR004100 SSF50615 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 N-terminal domain of the alpha/A/beta/B subunits, which forms a closed beta-barrel with Greek-key topology.

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) · 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 N-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 N-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) · UniProtKB KeyWords (KW) · Internal database links ]