SUPERFAMILY 1.75 HMM library and genome assignments server

F-box domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   F-box domain [ 81385]
Superfamily:   F-box domain [ 81383]
Families:   F-box domain [ 81381] (4)


Superfamily statistics
Genomes (524) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 52,274 42,588 6
Proteins 51,241 42,356 6


Functional annotation
General category General
Detailed category Protein interaction

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Cellular Component (CC)protein complex0.032210.000000002065Least InformativeInherited
Cellular Component (CC)transferase complex0.000014020Moderately InformativeDirect
Cellular Component (CC)ubiquitin ligase complex0.000000016390InformativeDirect

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) protein metabolic process 0.0000002149 Least Informative Direct
Biological Process (BP) regulation of cellular process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.1333 Least Informative Inherited
Biological Process (BP) positive regulation of biological process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) cellular catabolic process 0 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.0000000000009747 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.19 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.8061 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 1 Moderately Informative Inherited
Biological Process (BP) single-organism organelle organization 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.8618 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 1 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) tissue development 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 1 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.5088 Moderately Informative Inherited
Biological Process (BP) organic substance transport 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) signal transduction 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 1 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 1 Moderately Informative Inherited
Biological Process (BP) protein modification by small protein conjugation or removal 0 Informative Direct
Biological Process (BP) proteolysis 0 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 0 Informative Direct
Biological Process (BP) protein catabolic process 0 Informative Direct
Biological Process (BP) cell cycle process 0.00001059 Informative Direct
Biological Process (BP) cellular response to hormone stimulus 0.00003446 Informative Direct
Biological Process (BP) negative regulation of cellular component organization 0.0001116 Informative Direct
Biological Process (BP) positive regulation of catabolic process 0.4005 Informative Inherited
Biological Process (BP) regulation of cellular catabolic process 0.3949 Informative Inherited
Biological Process (BP) positive regulation of gene expression 1 Informative Inherited
Biological Process (BP) positive regulation of cellular protein metabolic process 0.3733 Informative Inherited
Biological Process (BP) negative regulation of catalytic activity 0.9215 Informative Inherited
Biological Process (BP) mitotic cell cycle 0.4133 Informative Inherited
Biological Process (BP) negative regulation of protein processing 1 Informative Inherited
Biological Process (BP) negative regulation of cellular protein metabolic process 0.9582 Informative Inherited
Biological Process (BP) regulation of transferase activity 0.9296 Informative Inherited
Biological Process (BP) cation homeostasis 0.5734 Informative Inherited
Biological Process (BP) microtubule-based process 1 Informative Inherited
Biological Process (BP) synaptic transmission 0.6127 Informative Inherited
Biological Process (BP) regulation of growth 0.8163 Informative Inherited
Biological Process (BP) regulation of cell cycle process 0.01298 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.216 Informative Inherited
Biological Process (BP) negative regulation of multicellular organismal process 0.3017 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.2651 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.2485 Informative Inherited
Biological Process (BP) regulation of mitotic cell cycle 0.2406 Informative Inherited
Biological Process (BP) regulation of system process 0.9419 Informative Inherited
Biological Process (BP) organelle fission 0.3381 Informative Inherited
Biological Process (BP) cell division 0.8837 Informative Inherited
Biological Process (BP) nucleic acid phosphodiester bond hydrolysis 0.495 Informative Inherited
Biological Process (BP) posttranscriptional regulation of gene expression 0.01207 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.2592 Informative Inherited
Biological Process (BP) response to light stimulus 0.1098 Informative Inherited
Biological Process (BP) cytoskeleton organization 1 Informative Inherited
Biological Process (BP) nitrogen compound transport 1 Informative Inherited
Biological Process (BP) carbohydrate derivative catabolic process 1 Informative Inherited
Biological Process (BP) ubiquitin-dependent protein catabolic process 0 Highly Informative Direct
Biological Process (BP) protein ubiquitination 0 Highly Informative Direct
Biological Process (BP) hormone-mediated signaling pathway 0.000000000009051 Highly Informative Direct
Biological Process (BP) regulation of protein stability 0.0000000002122 Highly Informative Direct
Biological Process (BP) regulation of circadian rhythm 0.0000000004561 Highly Informative Direct
Biological Process (BP) regulation of protein ubiquitination 0.000000007939 Highly Informative Direct
Biological Process (BP) positive regulation of protein modification by small protein conjugation or removal 0.000001138 Highly Informative Direct
Biological Process (BP) regulation of ligase activity 0.00001266 Highly Informative Direct
Biological Process (BP) proteasomal protein catabolic process 0.00001367 Highly Informative Direct
Biological Process (BP) negative regulation of nervous system development 0.00009585 Highly Informative Direct
Biological Process (BP) mitotic cell cycle phase transition 0.0002571 Highly Informative Direct
Biological Process (BP) transition metal ion homeostasis 0.0002889 Highly Informative Direct
Biological Process (BP) regulation of proteolysis involved in cellular protein catabolic process 0.0118 Highly Informative Inherited
Biological Process (BP) cellular response to biotic stimulus 0.1126 Highly Informative Inherited
Biological Process (BP) negative regulation of cellular catabolic process 0.1756 Highly Informative Inherited
Biological Process (BP) negative regulation of cell division 0.02674 Highly Informative Inherited
Biological Process (BP) negative regulation of protein catabolic process 0.02787 Highly Informative Inherited
Biological Process (BP) regulation of nuclear division 0.02452 Highly Informative Inherited
Biological Process (BP) negative regulation of chromosome organization 0.2729 Highly Informative Inherited
Biological Process (BP) negative regulation of transferase activity 0.06142 Highly Informative Inherited
Biological Process (BP) negative regulation of cytoskeleton organization 0.03582 Highly Informative Inherited
Biological Process (BP) regulation of developmental growth 0.01151 Highly Informative Inherited
Biological Process (BP) negative regulation of mitotic cell cycle phase transition 0.009615 Highly Informative Inherited
Biological Process (BP) DNA integrity checkpoint 0.04174 Highly Informative Inherited
Biological Process (BP) regulation of transmembrane receptor protein serine/threonine kinase signaling pathway 0.006228 Highly Informative Inherited
Biological Process (BP) ossification 0.04482 Highly Informative Inherited
Biological Process (BP) regulation of muscle system process 0.05808 Highly Informative Inherited
Biological Process (BP) meiotic cell cycle 0.1594 Highly Informative Inherited
Biological Process (BP) nuclear division 0.2705 Highly Informative Inherited
Biological Process (BP) DNA recombination 0.3803 Highly Informative Inherited
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) small molecule binding 0.6492 Moderately Informative Inherited
Molecular Function (MF) cation binding 1 Moderately Informative Inherited
Molecular Function (MF) carbohydrate derivative binding 1 Moderately Informative Inherited
Molecular Function (MF) anion binding 1 Moderately Informative Inherited
Molecular Function (MF) alcohol binding 0 Highly Informative Direct
Molecular Function (MF) ubiquitin-protein transferase activity 0 Highly Informative Direct
Molecular Function (MF) iron ion binding 0.0006014 Highly Informative Direct
Cellular Component (CC) protein complex 0.000000002065 Least Informative Direct
Cellular Component (CC) non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) transferase complex 0 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 1 Moderately Informative Inherited
Cellular Component (CC) ubiquitin ligase complex 0 Informative Direct
Cellular Component (CC) microtubule cytoskeleton 0.994 Informative Inherited
Cellular Component (CC) synapse 0.5809 Informative Inherited
Cellular Component (CC) microtubule organizing center 0.2242 Highly Informative Inherited

Document: GO annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cellular phenotype0.3608Least InformativeInherited
Mammalian Phenotype (MP)digestive/alimentary phenotype0.1283Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal digestive system physiology0.3456InformativeInherited
Mammalian Phenotype (MP)abnormal cell cycle0.00464Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism metabolism processing variant1Least InformativeInherited
Worm Phenotype (WP)protein aggregation variant0.9539Moderately InformativeInherited
Worm Phenotype (WP)protein aggregation induced paralysis0.0004857InformativeDirect
Worm Phenotype (WP)resistant to protein aggregation induced paralysis0.0001297Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)nervous system0Least InformativeDirect
Zebrafish Anatomy (ZA)cavitated compound organ0Least InformativeDirect
Zebrafish Anatomy (ZA)cell0Least InformativeDirect
Zebrafish Anatomy (ZA)electrically signaling cell0Moderately InformativeDirect
Zebrafish Anatomy (ZA)electrically responsive cell1Moderately InformativeInherited

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processCell cycle0.00001168Moderately InformativeDirect
Biological processBiological rhythms0InformativeDirect
Biological processUbl conjugation pathway0InformativeDirect
Biological processNeurogenesis0.000000000006469InformativeDirect
Biological processMitosis0.00000000004938InformativeDirect
Biological processWnt signaling pathway0.000009013InformativeDirect
Biological processSporulation0.0003931InformativeDirect
Biological processAuxin signaling pathway0.000001839Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentCell junction0.0000000002519Moderately InformativeDirect
Cellular componentSynapse0.00004269InformativeDirect
Coding sequence diversityAlternative splicing0.000001173Least InformativeDirect
DomainRepeat0Least InformativeDirect
DomainLeucine-rich repeat0InformativeDirect
DomainWD repeat0InformativeDirect
DomainKelch repeat0Highly InformativeDirect
Post-translational modificationReceptor1Moderately InformativeInherited
Post-translational modificationGuanine-nucleotide releasing factor0.0002598InformativeDirect
Post-translational modificationPhotoreceptor protein0.00000661Highly InformativeDirect
Post-translational modificationUbl conjugation0.00008672Moderately InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism0Least InformativeDirect
UniPathway (UP)protein ubiquitination0Moderately InformativeDirect

Document: UP annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

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 5 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 F-box domain 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 5 hidden Markov models representing the F-box domain 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 · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]