SUPERFAMILY 1.75 HMM library and genome assignments server


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 (688) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 113,207 114,720 32
Proteins 101,303 103,447 32


Functional annotation
General category Information
Detailed category DNA replication/repair

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)
GO termFDR (singleton)FDR (all)SDFO levelAnnotation (direct or inherited)
Biological Process (BP)cellular macromolecule metabolic process2.007e-100Least InformativeDirect
Biological Process (BP)protein metabolic process5.156e-080Least InformativeDirect
Biological Process (BP)regulation of metabolic process0.23590.002237Least InformativeInherited
Biological Process (BP)regulation of cellular process0.00045130.1074Least InformativeInherited
Biological Process (BP)response to stimulus0.74530.02214Least InformativeInherited
Biological Process (BP)single-organism cellular process0.35090.9667Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.0081280.002122Least InformativeInherited
Biological Process (BP)organelle organization0.0001441.944e-15Moderately InformativeDirect
Biological Process (BP)positive regulation of molecular function0.0020970.1448Moderately InformativeInherited
Biological Process (BP)cellular protein modification process0.011720Moderately InformativeInherited
Biological Process (BP)homeostatic process0.047051Moderately InformativeInherited
Biological Process (BP)regulation of catalytic activity0.17471Moderately InformativeInherited
Biological Process (BP)cellular catabolic process0.057320Moderately InformativeInherited
Biological Process (BP)cellular response to stress0.071433.065e-10Moderately InformativeInherited
Biological Process (BP)cellular response to chemical stimulus0.12471Moderately InformativeInherited
Biological Process (BP)signal transduction0.60471Moderately InformativeInherited
Biological Process (BP)protein modification by small protein conjugation or removal1.415e-120InformativeDirect
Biological Process (BP)protein catabolic process3.089e-050InformativeDirect
Biological Process (BP)regulation of peptidase activity0.00015760.0005809InformativeDirect
Biological Process (BP)cellular macromolecule catabolic process0.00023410InformativeDirect
Biological Process (BP)positive regulation of hydrolase activity0.011641InformativeInherited
Biological Process (BP)proteolysis0.0044494.107e-13InformativeInherited
Biological Process (BP)apoptotic process0.00012560.453InformativeInherited
Biological Process (BP)response to oxidative stress0.0031421InformativeInherited
Biological Process (BP)intracellular signal transduction0.012110.7106InformativeInherited
Biological Process (BP)positive regulation of endopeptidase activity4.771e-070.2734Highly InformativeInherited
Biological Process (BP)intrinsic apoptotic signaling pathway2.688e-060.02193Highly InformativeInherited
Molecular Function (MF)binding0.00086430Least InformativeDirect
Molecular Function (MF)ligase activity, forming carbon-nitrogen bonds00InformativeDirect
Molecular Function (MF)small conjugating protein ligase activity00Highly InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.00013160.7437Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.2210.03019Least InformativeInherited
Cellular Component (CC)protein complex2.699e-070.1873Least InformativeInherited
Cellular Component (CC)intracellular organelle lumen0.11930.4682Moderately InformativeInherited
Cellular Component (CC)nuclear part0.002264.609e-10Moderately InformativeInherited
Cellular Component (CC)ubiquitin ligase complex00InformativeDirect
Cellular Component (CC)nucleoplasm part0.37690.1621InformativeInherited
Cellular Component (CC)nuclear ubiquitin ligase complex2.742e-090Highly InformativeDirect
Cellular Component (CC)nuclear body7.519e-068.696e-14Highly InformativeDirect

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) cellular macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) protein metabolic process 0 Least Informative Direct
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) developmental process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.002237 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.002122 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.1074 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.9667 Least Informative Inherited
Biological Process (BP) response to stimulus 0.02214 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) organelle organization 1.944e-15 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 0 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 3.089e-05 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular response to stress 3.065e-10 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 7.073e-09 Moderately Informative Direct
Biological Process (BP) immune system process 3.497e-12 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0.4378 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.4898 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.8959 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.0553 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.04294 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.0107 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.4869 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.06139 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) regulation of programmed cell death 1 Moderately Informative Inherited
Biological Process (BP) homeostatic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 1 Moderately Informative Inherited
Biological Process (BP) carbohydrate metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.1448 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.2979 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.003669 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.9981 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.9748 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) system process 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 0.1639 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.05074 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.9154 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 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) RNA metabolic process 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.01881 Moderately Informative Inherited
Biological Process (BP) regulation of phosphate metabolic process 1 Moderately Informative Inherited
Biological Process (BP) signal transduction 1 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) protein modification by small protein conjugation or removal 0 Informative Direct
Biological Process (BP) protein catabolic process 0 Informative Direct
Biological Process (BP) regulation of peptidase activity 0.0005809 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 0 Informative Direct
Biological Process (BP) chromosome organization 5.118e-14 Informative Direct
Biological Process (BP) proteolysis 4.107e-13 Informative Direct
Biological Process (BP) cell cycle process 0.0001615 Informative Direct
Biological Process (BP) regulation of apoptotic signaling pathway 4.129e-05 Informative Direct
Biological Process (BP) regulation of organelle organization 5.2e-05 Informative Direct
Biological Process (BP) immune response 1.825e-12 Informative Direct
Biological Process (BP) response to DNA damage stimulus 0.0001386 Informative Direct
Biological Process (BP) protein complex assembly 0.0001606 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0.0004935 Informative Direct
Biological Process (BP) apoptotic process 0.453 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.672 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.1696 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.7434 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.8537 Informative Inherited
Biological Process (BP) positive regulation of hydrolase activity 1 Informative Inherited
Biological Process (BP) positive regulation of developmental process 1 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 1 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 1 Informative Inherited
Biological Process (BP) regulation of cellular catabolic process 1 Informative Inherited
Biological Process (BP) negative regulation of cell death 1 Informative Inherited
Biological Process (BP) mitotic cell cycle 0.9227 Informative Inherited
Biological Process (BP) negative regulation of protein metabolic process 0.004333 Informative Inherited
Biological Process (BP) negative regulation of catalytic activity 0.005257 Informative Inherited
Biological Process (BP) microtubule-based process 0.9057 Informative Inherited
Biological Process (BP) cytoskeleton organization 1 Informative Inherited
Biological Process (BP) cellular carbohydrate metabolic process 1 Informative Inherited
Biological Process (BP) polysaccharide metabolic process 1 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.152 Informative Inherited
Biological Process (BP) regulation of immune effector process 0.3046 Informative Inherited
Biological Process (BP) regulation of establishment of protein localization 0.7885 Informative Inherited
Biological Process (BP) regulation of secretion 1 Informative Inherited
Biological Process (BP) secretion by cell 0.9212 Informative Inherited
Biological Process (BP) regulation of locomotion 0.9146 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 1 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 1 Informative Inherited
Biological Process (BP) regulation of cell cycle process 0.02832 Informative Inherited
Biological Process (BP) positive regulation of nitrogen compound metabolic process 1 Informative Inherited
Biological Process (BP) regulation of lipid metabolic process 0.6676 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.02065 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.4206 Informative Inherited
Biological Process (BP) regulation of cell development 0.7647 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.2077 Informative Inherited
Biological Process (BP) carbohydrate biosynthetic process 0.7168 Informative Inherited
Biological Process (BP) synaptic transmission 1 Informative Inherited
Biological Process (BP) regulation of defense response 0.9405 Informative Inherited
Biological Process (BP) transmembrane transport 1 Informative Inherited
Biological Process (BP) DNA metabolic process 1 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.05567 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.001376 Informative Inherited
Biological Process (BP) generation of neurons 0.9726 Informative Inherited
Biological Process (BP) sensory organ development 1 Informative Inherited
Biological Process (BP) organ morphogenesis 1 Informative Inherited
Biological Process (BP) cellular membrane organization 1 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 1 Informative Inherited
Biological Process (BP) negative regulation of gene expression 1 Informative Inherited
Biological Process (BP) regulation of mitotic cell cycle 0.003599 Informative Inherited
Biological Process (BP) regulation of cytokine production 0.0302 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 1 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.4176 Informative Inherited
Biological Process (BP) peptidyl-amino acid modification 1 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 1 Informative Inherited
Biological Process (BP) response to nutrient levels 0.6205 Informative Inherited
Biological Process (BP) muscle structure development 0.509 Informative Inherited
Biological Process (BP) muscle tissue development 1 Informative Inherited
Biological Process (BP) ncRNA metabolic process 1 Informative Inherited
Biological Process (BP) response to organonitrogen compound 0.8583 Informative Inherited
Biological Process (BP) response to hormone stimulus 0.6413 Informative Inherited
Biological Process (BP) regulation of hormone levels 0.8883 Informative Inherited
Biological Process (BP) response to other organism 0.5124 Informative Inherited
Biological Process (BP) response to oxidative stress 1 Informative Inherited
Biological Process (BP) epithelium development 0.2639 Informative Inherited
Biological Process (BP) positive regulation of protein modification process 1 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.7106 Informative Inherited
Biological Process (BP) regulation of kinase activity 0.4127 Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 1 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 1 Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 0.957 Informative Inherited
Biological Process (BP) phosphorylation 1 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.2179 Informative Inherited
Biological Process (BP) protein localization to organelle 0.01343 Informative Inherited
Biological Process (BP) protein transport 0.002505 Informative Inherited
Biological Process (BP) cytoplasmic transport 0.4093 Informative Inherited
Biological Process (BP) defense response 0.3962 Informative Inherited
Biological Process (BP) immune effector process 0.02498 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.2859 Informative Inherited
Biological Process (BP) leukocyte activation 0.967 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.1597 Informative Inherited
Biological Process (BP) regulation of immune response 0.543 Informative Inherited
Biological Process (BP) response to wounding 1 Informative Inherited
Biological Process (BP) mitochondrion organization 1 Informative Inherited
Biological Process (BP) regulation of cysteine-type endopeptidase activity involved in apoptotic process 0.0001328 Highly Informative Direct
Biological Process (BP) protein ubiquitination 0 Highly Informative Direct
Biological Process (BP) positive regulation of sequence-specific DNA binding transcription factor activity 0 Highly Informative Direct
Biological Process (BP) regulation of multi-organism process 0 Highly Informative Direct
Biological Process (BP) regulation of protein catabolic process 1.211e-13 Highly Informative Direct
Biological Process (BP) internal protein amino acid acetylation 7.778e-12 Highly Informative Direct
Biological Process (BP) regulation of protein ubiquitination 2.72e-11 Highly Informative Direct
Biological Process (BP) regulation of protein stability 7.329e-11 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 2.659e-10 Highly Informative Direct
Biological Process (BP) regulation of innate immune response 9.844e-10 Highly Informative Direct
Biological Process (BP) peptidyl-lysine modification 5.576e-09 Highly Informative Direct
Biological Process (BP) positive regulation of catabolic process 4.158e-08 Highly Informative Direct
Biological Process (BP) DNA recombination 2.181e-07 Highly Informative Direct
Biological Process (BP) regulation of ligase activity 3.351e-07 Highly Informative Direct
Biological Process (BP) response to ionizing radiation 4.337e-07 Highly Informative Direct
Biological Process (BP) leukocyte activation involved in immune response 5.231e-07 Highly Informative Direct
Biological Process (BP) protein import 2.811e-06 Highly Informative Direct
Biological Process (BP) regulation of proteolysis 4.377e-06 Highly Informative Direct
Biological Process (BP) B cell activation 9.519e-06 Highly Informative Direct
Biological Process (BP) negative regulation of apoptotic signaling pathway 1.524e-05 Highly Informative Direct
Biological Process (BP) response to topologically incorrect protein 3.276e-05 Highly Informative Direct
Biological Process (BP) neural tube development 0.0001077 Highly Informative Direct
Biological Process (BP) positive regulation of defense response 0.0001534 Highly Informative Direct
Biological Process (BP) regulation of autophagy 0.000197 Highly Informative Direct
Biological Process (BP) immune response-activating signal transduction 0.0003857 Highly Informative Direct
Biological Process (BP) innate immune response 0.0004269 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 0.0006371 Highly Informative Direct
Biological Process (BP) hormone-mediated signaling pathway 0.0008007 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 0.0008693 Highly Informative Direct
Biological Process (BP) negative regulation of endopeptidase activity 0.7452 Highly Informative Inherited
Biological Process (BP) positive regulation of organelle organization 0.1705 Highly Informative Inherited
Biological Process (BP) regulation of intrinsic apoptotic signaling pathway 1 Highly Informative Inherited
Biological Process (BP) positive regulation of endopeptidase activity 0.2734 Highly Informative Inherited
Biological Process (BP) regulation of mitochondrion organization 0.1749 Highly Informative Inherited
Biological Process (BP) cell wall biogenesis 0.007847 Highly Informative Inherited
Biological Process (BP) cellular component macromolecule biosynthetic process 0.008115 Highly Informative Inherited
Biological Process (BP) cell wall macromolecule metabolic process 1 Highly Informative Inherited
Biological Process (BP) negative regulation of multicellular organismal process 1 Highly Informative Inherited
Biological Process (BP) glial cell differentiation 0.2624 Highly Informative Inherited
Biological Process (BP) regulation of mitosis 0.006645 Highly Informative Inherited
Biological Process (BP) negative regulation of cellular catabolic process 0.2022 Highly Informative Inherited
Biological Process (BP) negative regulation of mitotic cell cycle phase transition 0.2216 Highly Informative Inherited
Biological Process (BP) negative regulation of cell cycle 1 Highly Informative Inherited
Biological Process (BP) modification of morphology or physiology of other organism 0.134 Highly Informative Inherited
Biological Process (BP) symbiosis, encompassing mutualism through parasitism 0.6158 Highly Informative Inherited
Biological Process (BP) negative regulation of protein modification process 0.5522 Highly Informative Inherited
Biological Process (BP) cellular polysaccharide biosynthetic process 0.02734 Highly Informative Inherited
Biological Process (BP) regulation of production of molecular mediator of immune response 0.5442 Highly Informative Inherited
Biological Process (BP) negative regulation of locomotion 0.3875 Highly Informative Inherited
Biological Process (BP) positive regulation of cell cycle process 0.1332 Highly Informative Inherited
Biological Process (BP) regulation of cellular ketone metabolic process 0.1344 Highly Informative Inherited
Biological Process (BP) negative regulation of lipid biosynthetic process 0.001667 Highly Informative Inherited
Biological Process (BP) regulation of T cell activation 0.4714 Highly Informative Inherited
Biological Process (BP) negative regulation of cell activation 0.8435 Highly Informative Inherited
Biological Process (BP) negative regulation of immune system process 0.9485 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 1 Highly Informative Inherited
Biological Process (BP) regulation of leukocyte differentiation 0.8996 Highly Informative Inherited
Biological Process (BP) photoreceptor cell differentiation 0.3269 Highly Informative Inherited
Biological Process (BP) DNA damage checkpoint 1 Highly Informative Inherited
Biological Process (BP) DNA modification 0.9713 Highly Informative Inherited
Biological Process (BP) leukocyte homeostasis 0.2692 Highly Informative Inherited
Biological Process (BP) eye morphogenesis 0.7985 Highly Informative Inherited
Biological Process (BP) cell fate commitment 1 Highly Informative Inherited
Biological Process (BP) leukocyte mediated immunity 0.6556 Highly Informative Inherited
Biological Process (BP) membrane fusion 0.03303 Highly Informative Inherited
Biological Process (BP) regulation of protein complex assembly 0.373 Highly Informative Inherited
Biological Process (BP) gene silencing 0.1617 Highly Informative Inherited
Biological Process (BP) positive regulation of cytokine production 0.1752 Highly Informative Inherited
Biological Process (BP) regulation of protein depolymerization 0.4096 Highly Informative Inherited
Biological Process (BP) ubiquitin-dependent protein catabolic process 1 Highly Informative Inherited
Biological Process (BP) nucleus organization 0.6499 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.3409 Highly Informative Inherited
Biological Process (BP) regulation of translation 0.1605 Highly Informative Inherited
Biological Process (BP) histone modification 0.9302 Highly Informative Inherited
Biological Process (BP) establishment of protein localization to organelle 0.01123 Highly Informative Inherited
Biological Process (BP) regulation of angiogenesis 0.03015 Highly Informative Inherited
Biological Process (BP) autophagy 0.003125 Highly Informative Inherited
Biological Process (BP) cellular response to starvation 1 Highly Informative Inherited
Biological Process (BP) muscle organ development 0.1812 Highly Informative Inherited
Biological Process (BP) cellular hormone metabolic process 0.9977 Highly Informative Inherited
Biological Process (BP) response to fungus 0.001635 Highly Informative Inherited
Biological Process (BP) intrinsic apoptotic signaling pathway 0.02193 Highly Informative Inherited
Biological Process (BP) epithelial cell development 0.01332 Highly Informative Inherited
Biological Process (BP) positive regulation of protein kinase activity 0.3036 Highly Informative Inherited
Biological Process (BP) protein phosphorylation 1 Highly Informative Inherited
Biological Process (BP) regulation of microtubule polymerization or depolymerization 0.4211 Highly Informative Inherited
Biological Process (BP) negative regulation of cytoskeleton organization 0.04144 Highly Informative Inherited
Biological Process (BP) negative regulation of protein complex disassembly 0.05932 Highly Informative Inherited
Biological Process (BP) protein deacylation 1 Highly Informative Inherited
Biological Process (BP) T cell differentiation 0.02016 Highly Informative Inherited
Biological Process (BP) alpha-beta T cell activation 0.09531 Highly Informative Inherited
Biological Process (BP) wound healing 1 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) cation binding 1.066e-07 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding 1 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 1 Moderately Informative Inherited
Molecular Function (MF) anion binding 1 Moderately Informative Inherited
Molecular Function (MF) ligase activity, forming carbon-nitrogen bonds 0 Informative Direct
Molecular Function (MF) transition metal ion binding 0 Informative Direct
Molecular Function (MF) chromatin binding 4.762e-06 Informative Direct
Molecular Function (MF) enzyme binding 0.0002723 Informative Direct
Molecular Function (MF) carbohydrate derivative binding 0.5873 Informative Inherited
Molecular Function (MF) receptor binding 1 Informative Inherited
Molecular Function (MF) RNA binding 1 Informative Inherited
Molecular Function (MF) transferase activity, transferring acyl groups 0.5363 Informative Inherited
Molecular Function (MF) nucleotide binding 1 Informative Inherited
Molecular Function (MF) receptor activity 1 Informative Inherited
Molecular Function (MF) molecular transducer activity 1 Informative Inherited
Molecular Function (MF) DNA binding 0.7817 Informative Inherited
Molecular Function (MF) peptidase activity 0.1079 Informative Inherited
Molecular Function (MF) hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds 0.931 Informative Inherited
Molecular Function (MF) carboxylic acid binding 0.7465 Informative Inherited
Molecular Function (MF) lipid binding 1 Informative Inherited
Molecular Function (MF) small conjugating protein ligase activity 0 Highly Informative Direct
Molecular Function (MF) thiolester hydrolase activity 0 Highly Informative Direct
Molecular Function (MF) protein binding transcription factor activity 1.198e-05 Highly Informative Direct
Molecular Function (MF) deacetylase activity 0.0001189 Highly Informative Direct
Molecular Function (MF) acetyltransferase activity 0.0007795 Highly Informative Direct
Molecular Function (MF) protein domain specific binding 0.001657 Highly Informative Inherited
Molecular Function (MF) structure-specific DNA binding 0.4228 Highly Informative Inherited
Molecular Function (MF) cytokine receptor binding 1 Highly Informative Inherited
Molecular Function (MF) endopeptidase activity 0.2192 Highly Informative Inherited
Molecular Function (MF) amino acid binding 0.1643 Highly Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 9.165e-08 Least Informative Direct
Cellular Component (CC) membrane 1 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.7437 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.03019 Least Informative Inherited
Cellular Component (CC) protein complex 0.1873 Least Informative Inherited
Cellular Component (CC) nuclear part 4.609e-10 Moderately Informative Direct
Cellular Component (CC) ribonucleoprotein complex 0.5526 Moderately Informative Inherited
Cellular Component (CC) intrinsic to membrane 1 Moderately Informative Inherited
Cellular Component (CC) cytoskeleton 1 Moderately Informative Inherited
Cellular Component (CC) mitochondrial part 1 Moderately Informative Inherited
Cellular Component (CC) organelle envelope 1 Moderately Informative Inherited
Cellular Component (CC) organelle membrane 0.04266 Moderately Informative Inherited
Cellular Component (CC) plasma membrane 1 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.4682 Moderately Informative Inherited
Cellular Component (CC) ubiquitin ligase complex 0 Informative Direct
Cellular Component (CC) chromosome 3.419e-09 Informative Direct
Cellular Component (CC) endosome 9.397e-05 Informative Direct
Cellular Component (CC) lytic vacuole 0.2501 Informative Inherited
Cellular Component (CC) integral to membrane 1 Informative Inherited
Cellular Component (CC) intrinsic to plasma membrane 1 Informative Inherited
Cellular Component (CC) actin cytoskeleton 1 Informative Inherited
Cellular Component (CC) microbody 0.001506 Informative Inherited
Cellular Component (CC) mitochondrial membrane part 1 Informative Inherited
Cellular Component (CC) vacuolar part 0.006197 Informative Inherited
Cellular Component (CC) contractile fiber part 0.1344 Informative Inherited
Cellular Component (CC) nuclear DNA-directed RNA polymerase complex 1 Informative Inherited
Cellular Component (CC) nucleoplasm part 0.1621 Informative Inherited
Cellular Component (CC) nuclear ubiquitin ligase complex 0 Highly Informative Direct
Cellular Component (CC) nuclear body 8.696e-14 Highly Informative Direct
Cellular Component (CC) cytoplasmic mRNA processing body 0 Highly Informative Direct
Cellular Component (CC) sarcolemma 7.86e-11 Highly Informative Direct
Cellular Component (CC) intrinsic to organelle membrane 9.464e-05 Highly Informative Direct
Cellular Component (CC) lysosome 0.2944 Highly Informative Inherited
Cellular Component (CC) receptor complex 1 Highly Informative Inherited
Cellular Component (CC) integral to plasma membrane 1 Highly Informative Inherited
Cellular Component (CC) endosomal part 0.09306 Highly Informative Inherited
Cellular Component (CC) organelle outer membrane 0.2215 Highly Informative Inherited
Cellular Component (CC) sarcomere 0.6936 Highly Informative Inherited
Cellular Component (CC) chromatin 0.7176 Highly Informative Inherited

Document: GO annotation of SCOP domains

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)Glycosyltransferases1.652e-09Moderately InformativeDirect
Enzyme Commission (EC)Transferring groups other than amino-acyl groups4.836e-06Moderately InformativeDirect
Enzyme Commission (EC)Histone acetyltransferase0InformativeDirect
Enzyme Commission (EC)Peptidylprolyl isomerase6.579e-13InformativeDirect
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 skeletal morphology0.3863Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of muscle physiology0.5682Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digit0.7551Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the globe0.7685Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lower limb0.9233Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of toe0.1039InformativeInherited
Phenotypic Abnormality (PA)Muscular hypotonia0.2908InformativeInherited
Phenotypic Abnormality (PA)Generalized neonatal hypotonia7.104e-06Highly InformativeDirect
Phenotypic Abnormality (PA)Brushfield spots0.0001338Highly InformativeDirect
Phenotypic Abnormality (PA)Clubbing of toes0.0009062Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cellular phenotype0.05292Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.8024Least InformativeInherited
Mammalian Phenotype (MP)abnormal tumor incidence0.005193Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.02635Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal interleukin secretion0.625InformativeInherited
Mammalian Phenotype (MP)chromosomal instability2.719e-05Highly InformativeDirect
Mammalian Phenotype (MP)abnormal interleukin-2 secretion0.03964Highly 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 variant1.122e-15Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.5632Least InformativeInherited
Worm Phenotype (WP)protein aggregation variant0Moderately InformativeDirect
Worm Phenotype (WP)pattern of transgene expression variant2.914e-09Moderately InformativeDirect
Worm Phenotype (WP)cell homeostasis metabolism variant0.00099Moderately InformativeDirect
Worm Phenotype (WP)cell stress response variant7.14e-09InformativeDirect
Worm Phenotype (WP)neuron development variant0.2742InformativeInherited
Worm Phenotype (WP)cell ionizing radiation response variant4.226e-08Highly InformativeDirect
Worm Phenotype (WP)axon morphology variant0.1107Highly InformativeInherited
Worm Phenotype (WP)germ cell ionizing radiation response variant0.1541Highly InformativeInherited

Document: WP annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)gonad0.001831Least InformativeInherited
Xenopus ANatomical entity (XAN)genital system0.002271Least InformativeInherited
Xenopus ANatomical entity (XAN)ovary0.0006066Moderately InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)leaf0.6547Least InformativeInherited
Plant ANatomical entity (PAN)pollen tube cell9.658e-05InformativeDirect
Plant ANatomical entity (PAN)leaf epidermis0.0001737Highly InformativeDirect
Plant ANatomical entity (PAN)trichome0.005802Highly InformativeInherited
Plant structure DEvelopment stage (PDE)pollen development stage1.142e-05Moderately InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases1.673e-15Least InformativeDirect
Enzyme Commission (EC)Transferring phosphorous-containing groups1Least InformativeInherited
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0Moderately InformativeDirect
Enzyme Commission (EC)Glycosyltransferases8.595e-09Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases9.099e-05Moderately InformativeDirect
Enzyme Commission (EC)Isomerases0.03108Moderately InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0.08377Moderately InformativeInherited
Enzyme Commission (EC)Acting on carbon-nitrogen bonds, other than peptide bonds1Moderately InformativeInherited
Enzyme Commission (EC)Ligases1Moderately InformativeInherited
Enzyme Commission (EC)Histone acetyltransferase0InformativeDirect
Enzyme Commission (EC)Hexosyltransferases0InformativeDirect
Enzyme Commission (EC)Omega peptidases0InformativeDirect
Enzyme Commission (EC)In linear amides0.1251InformativeInherited
Enzyme Commission (EC)Acid--amino-acid ligases (peptide synthases)0.2253InformativeInherited
Enzyme Commission (EC)Peptidylprolyl isomerase8.012e-13Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processApoptosis0Moderately InformativeDirect
Biological processTranscription regulation1.641e-12Moderately InformativeDirect
Biological processHost-virus interaction9.488e-12Moderately InformativeDirect
Biological processCell cycle4.858e-10Moderately InformativeDirect
Biological processDNA damage4.66e-06Moderately InformativeDirect
Biological processDifferentiation0.0006336Moderately InformativeDirect
Biological processMitosis0InformativeDirect
Biological processUbl conjugation pathway0InformativeDirect
Biological processEndocytosis2.787e-14InformativeDirect
Biological processWnt signaling pathway7.084e-14InformativeDirect
Biological processmRNA splicing7.713e-10InformativeDirect
Biological processPlant defense6.239e-06InformativeDirect
Biological processMeiosis1.727e-05InformativeDirect
Biological processViral immunoevasion0.03356InformativeInherited
Biological processAntiviral defense0Highly InformativeDirect
Biological processNotch signaling pathway0Highly InformativeDirect
Biological processAutophagy2.617e-13Highly InformativeDirect
Biological processVirus exit from host cell3.702e-06Highly InformativeDirect
Biological processModulation of host cell apoptosis by virus0.0001446Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
Cellular componentEndosome0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle7.395e-14Moderately InformativeDirect
Cellular componentGolgi apparatus4.244e-10Moderately InformativeDirect
Cellular componentCell junction1.639e-06Moderately InformativeDirect
Cellular componentMitochondrion1Moderately InformativeInherited
Cellular componentLysosome0InformativeDirect
Cellular componentPeroxisome0InformativeDirect
Cellular componentSpliceosome1.053e-12InformativeDirect
Cellular componentChromosome7.938e-12InformativeDirect
Cellular componentVacuole7.319e-08InformativeDirect
Cellular componentMitochondrion outer membrane1.545e-07InformativeDirect
Cellular componentSynapse1.684e-06InformativeDirect
Cellular componentHost cytoplasm2.517e-05InformativeDirect
Cellular componentLipid droplet1.758e-06Highly InformativeDirect
Cellular componentHost endosome0.0003839Highly InformativeDirect
Coding sequence diversityAlternative splicing1.386e-12Least InformativeDirect
Developmental stageEarly protein0.0001762Least InformativeDirect
DiseaseTumor suppressor9.047e-05Moderately InformativeDirect
DiseaseOsteopetrosis6.619e-08Highly InformativeDirect
DomainTransmembrane1Least InformativeInherited
DomainCoiled coil0Moderately InformativeDirect
DomainZinc-finger0Moderately InformativeDirect
DomainBromodomain8.828e-07Highly InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationLigase0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationDevelopmental protein7.628e-10Moderately InformativeDirect
Post-translational modificationActivator1.159e-05Moderately InformativeDirect
Post-translational modificationProtease0.01414Moderately InformativeInherited
Post-translational modificationChromatin regulator0InformativeDirect
Post-translational modificationThiol protease0InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationAcetylation1.494e-13Least InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond1.836e-11Moderately InformativeDirect
Post-translational modificationMyristate0InformativeDirect

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
UniPathway (UP)glycan metabolism1Moderately InformativeInherited
UniPathway (UP)cellulose metabolism6.755e-16InformativeDirect

Document: UP annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · 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 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 · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]