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RING/U-box superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Small proteins [ 56992] (90)
Fold:   RING/U-box [ 57849]
Superfamily:   RING/U-box [ 57850] (6)
Families:   RING finger domain, C3HC4 [ 57851] (14)
  U-box [ 90222] (4)
  Variant RING domain [ 118300] (2)
  IBR domain [ 144228]
  Zf-UBP [ 161204] (3)
  ZZ domain [ 161211] (3)


Superfamily statistics
Genomes (697) Uniprot 2018_03 genome PDB chains (SCOP 1.75)
Domains 115,075 0 32
Proteins 102,869 0 32


Functional annotation
General category Information
Detailed category DNA replication/repair

Document:
Function annotation of SCOP domain superfamilies

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0Least InformativeDirect
Enzyme Commission (EC)Isomerases0.0228Least InformativeInherited
Enzyme Commission (EC)Omega peptidases0Moderately InformativeDirect
Enzyme Commission (EC)Glycosyltransferases0.000000001652Moderately InformativeDirect
Enzyme Commission (EC)Transferring groups other than amino-acyl groups0.000004836Moderately InformativeDirect
Enzyme Commission (EC)Histone acetyltransferase0InformativeDirect
Enzyme Commission (EC)Peptidylprolyl isomerase0.0000000000006579InformativeDirect
Enzyme Commission (EC)Cellulose synthase (UDP-forming)0Highly InformativeDirect

Document: EC annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of the genitourinary system0.02923Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the integument0.04388Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eye0.2276Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0.4448Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the musculature0.9022Least InformativeInherited
Phenotypic Abnormality (PA)Abnormal reproductive system morphology0.009555Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the endocrine system0.04903Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal fundus morphology0.2882Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal muscle tone0.6551Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of skin adnexa morphology0.8579Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the uvea0.09915InformativeInherited
Phenotypic Abnormality (PA)Abnormality of lipid metabolism0.1987InformativeInherited
Phenotypic Abnormality (PA)Abnormal retinal morphology0.2042InformativeInherited
Phenotypic Abnormality (PA)Muscle weakness0.3713InformativeInherited
Phenotypic Abnormality (PA)Abnormal chorioretinal morphology0.003796Highly InformativeInherited
Phenotypic Abnormality (PA)Precocious puberty0.0526Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cellular phenotype0.3936Least InformativeInherited
Mammalian Phenotype (MP)neoplasm0.009703Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal gland morphology0.3518Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal muscle morphology0.4468Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal digestive system morphology0.7527Moderately InformativeInherited
Mammalian Phenotype (MP)chromosomal instability0.00069InformativeDirect
Mammalian Phenotype (MP)abnormal intestine morphology0.5928InformativeInherited
Mammalian Phenotype (MP)abnormal hypaxial muscle morphology0.6914InformativeInherited
Mammalian Phenotype (MP)abnormal small intestine morphology0.0475Highly InformativeInherited
Mammalian Phenotype (MP)abnormal crypts of Lieberkuhn morphology0.3562Highly InformativeInherited

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)cell development variant0Least InformativeDirect
Worm Phenotype (WP)organism metabolism processing variant8.886e-16Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.827Least InformativeInherited
Worm Phenotype (WP)organ system morphology variant0.8819Least InformativeInherited
Worm Phenotype (WP)cell morphology variant1Least InformativeInherited
Worm Phenotype (WP)protein protein interaction variant0Moderately InformativeDirect
Worm Phenotype (WP)pattern of transgene expression variant0.00000000001977Moderately InformativeDirect
Worm Phenotype (WP)cell homeostasis metabolism variant0.008502Moderately InformativeInherited
Worm Phenotype (WP)nervous system morphology variant0.7877Moderately InformativeInherited
Worm Phenotype (WP)neuron migration variant0InformativeDirect
Worm Phenotype (WP)cell stress response variant0.000005308InformativeDirect
Worm Phenotype (WP)neuronal outgrowth variant0.2251InformativeInherited
Worm Phenotype (WP)axon morphology variant0.2032Highly InformativeInherited
Worm Phenotype (WP)germ cell ionizing radiation response variant0.5605Highly InformativeInherited

Document: WP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)embryo0.4436Least InformativeInherited
Fly Anatomy (FA)larva0.4656Least InformativeInherited
Fly Anatomy (FA)somatic cell0.8866Least InformativeInherited
Fly Anatomy (FA)late embryo0.6859Moderately InformativeInherited
Fly Anatomy (FA)circulatory system0.0723InformativeInherited
Fly Anatomy (FA)embryonic/larval garland cell0.0001396Highly InformativeDirect

Document: FA annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)leaf0.6305Least InformativeInherited
Plant ANatomical entity (PAN)pollen tube cell0.00008752InformativeDirect
Plant ANatomical entity (PAN)leaf epidermis0.0001955Highly InformativeDirect
Plant ANatomical entity (PAN)trichome0.00572Highly InformativeInherited
Plant structure DEvelopment stage (PDE)pollen development stage0.000009811Moderately InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases1Least InformativeInherited
Enzyme Commission (EC)Acyltransferases0Moderately InformativeDirect
Enzyme Commission (EC)Acting on peptide bonds (peptidases)0.001423Moderately InformativeInherited
Enzyme Commission (EC)Glycosyltransferases1Moderately InformativeInherited
Enzyme Commission (EC)RING-type E3 ubiquitin transferase0InformativeDirect
Enzyme Commission (EC)Omega peptidases0InformativeDirect
Enzyme Commission (EC)Histone acetyltransferase0.000000000000506InformativeDirect
Enzyme Commission (EC)Hexosyltransferases0.4392InformativeInherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processApoptosis0Moderately InformativeDirect
Biological processImmunity0Moderately InformativeDirect
Biological processUbl conjugation pathway0Moderately InformativeDirect
Biological processDNA damage0.000000000001935Moderately InformativeDirect
Biological processHost-virus interaction0.0000000001769Moderately InformativeDirect
Biological processTranscription regulation0.0000000002083Moderately InformativeDirect
Biological processCell cycle0.00000002186Moderately InformativeDirect
Biological processAutophagy0InformativeDirect
Biological processMitosis0InformativeDirect
Biological processWnt signaling pathway0.00000000000008559InformativeDirect
Biological processEndocytosis0.0000000000004392InformativeDirect
Biological processMeiosis0.00001191InformativeDirect
Biological processPlant defense0.0001325InformativeDirect
Biological processmRNA processing0.001151InformativeInherited
Biological processViral immunoevasion0.7391InformativeInherited
Biological processAntiviral defense0Highly InformativeDirect
Biological processNotch signaling pathway0Highly InformativeDirect
Biological processAbscisic acid signaling pathway0.000000002047Highly InformativeDirect
Biological processInhibition of host IRF3 by virus0.0000001916Highly InformativeDirect
Biological processViral release from host cell0.00003161Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
Cellular componentEndosome0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0.00000000000002998Moderately InformativeDirect
Cellular componentGolgi apparatus0.000000000004405Moderately InformativeDirect
Cellular componentCell junction0.00000006351Moderately InformativeDirect
Cellular componentCell projection0.0006045Moderately InformativeDirect
Cellular componentMitochondrion1Moderately InformativeInherited
Cellular componentChromosome0InformativeDirect
Cellular componentLysosome0InformativeDirect
Cellular componentPeroxisome0InformativeDirect
Cellular componentSpliceosome0.0000000000001062InformativeDirect
Cellular componentSynapse0.00000001145InformativeDirect
Cellular componentMitochondrion outer membrane0.000000295InformativeDirect
Cellular componentVacuole0.000001412InformativeDirect
Cellular componentHost cytoplasm0.000561InformativeDirect
Cellular componentLipid droplet0.00000000546Highly InformativeDirect
Coding sequence diversityAlternative splicing0.000000000000002343Least InformativeDirect
Developmental stageEarly protein0.0001524Least InformativeDirect
DiseaseTumor suppressor0.0004009Moderately InformativeDirect
DiseaseOsteopetrosis0.0000001848Highly InformativeDirect
DomainTransmembrane1Least InformativeInherited
DomainCoiled coil0Moderately InformativeDirect
DomainZinc-finger0Moderately InformativeDirect
DomainBromodomain0.000001394Highly InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0.0000000000001082Moderately InformativeDirect
Post-translational modificationActivator0.0000001371Moderately InformativeDirect
Post-translational modificationProtease0.05684Moderately InformativeInherited
Post-translational modificationChromatin regulator0InformativeDirect
Post-translational modificationThiol protease0InformativeDirect
Post-translational modificationActin-binding0.0000025InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationAcetylation0.000000000003038Least InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond0Moderately InformativeDirect
Post-translational modificationMyristate0InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · 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 27 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 RING/U-box 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 27 hidden Markov models representing the RING/U-box 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 · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Fly Anatomy (FA) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]