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 process3.72e-100Least InformativeDirect
Biological Process (BP)protein metabolic process4.076e-080Least InformativeDirect
Biological Process (BP)regulation of cellular process7.954e-050.08933Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.12410.004523Least InformativeInherited
Biological Process (BP)response to stimulus0.64540.004608Least InformativeInherited
Biological Process (BP)single-organism cellular process0.34920.8556Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.010340.002137Least InformativeInherited
Biological Process (BP)organelle organization0.00017872.119e-14Moderately InformativeDirect
Biological Process (BP)regulation of macromolecule biosynthetic process0.007491Moderately InformativeInherited
Biological Process (BP)regulation of cellular biosynthetic process0.012540.1514Moderately InformativeInherited
Biological Process (BP)regulation of nucleobase-containing compound metabolic process0.013890.9837Moderately InformativeInherited
Biological Process (BP)positive regulation of molecular function0.0021380.069Moderately InformativeInherited
Biological Process (BP)cellular protein modification process0.041590Moderately InformativeInherited
Biological Process (BP)regulation of biological quality11Moderately InformativeInherited
Biological Process (BP)regulation of catalytic activity0.3291Moderately InformativeInherited
Biological Process (BP)cellular catabolic process0.057570Moderately InformativeInherited
Biological Process (BP)organic substance catabolic process0.063127.357e-14Moderately InformativeInherited
Biological Process (BP)cellular response to chemical stimulus0.053381Moderately InformativeInherited
Biological Process (BP)cellular response to stress0.079471.874e-09Moderately InformativeInherited
Biological Process (BP)signal transduction0.72021Moderately InformativeInherited
Biological Process (BP)protein modification by small protein conjugation or removal5.6e-120InformativeDirect
Biological Process (BP)protein catabolic process3.084e-050InformativeDirect
Biological Process (BP)regulation of peptidase activity0.0001720.0006511InformativeDirect
Biological Process (BP)cellular macromolecule catabolic process0.00022420InformativeDirect
Biological Process (BP)positive regulation of hydrolase activity0.0093361InformativeInherited
Biological Process (BP)proteolysis0.0044083.755e-15InformativeInherited
Biological Process (BP)apoptotic process0.00013760.4697InformativeInherited
Biological Process (BP)response to oxidative stress0.00361InformativeInherited
Biological Process (BP)intracellular signal transduction0.011390.5882InformativeInherited
Biological Process (BP)positive regulation of endopeptidase activity4.576e-070.2503Highly InformativeInherited
Biological Process (BP)intrinsic apoptotic signaling pathway2.943e-060.03566Highly InformativeInherited
Molecular Function (MF)binding0.00061280Least InformativeDirect
Molecular Function (MF)ligase activity00InformativeDirect
Molecular Function (MF)small conjugating protein ligase activity00Highly InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle6.825e-050.8156Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.27070.06945Least InformativeInherited
Cellular Component (CC)protein complex3.943e-070.2077Least InformativeInherited
Cellular Component (CC)intracellular organelle lumen0.11780.3694Moderately InformativeInherited
Cellular Component (CC)nuclear part0.0035512.328e-08Moderately InformativeInherited
Cellular Component (CC)ubiquitin ligase complex00InformativeDirect
Cellular Component (CC)nucleoplasm part0.38380.0555InformativeInherited
Cellular Component (CC)nuclear ubiquitin ligase complex2.722e-091.474e-14Highly InformativeDirect
Cellular Component (CC)nuclear body8.594e-061.589e-15Highly 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 0.004523 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.002137 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.08933 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.8556 Least Informative Inherited
Biological Process (BP) response to stimulus 0.004608 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) organic cyclic 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 2.119e-14 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 2.878e-06 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 0 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 7.357e-14 Moderately Informative Direct
Biological Process (BP) cellular response to stress 1.874e-09 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 1.493e-10 Moderately Informative Direct
Biological Process (BP) immune system process 4.996e-12 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0.2032 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.2477 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.9063 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.04873 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.07718 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.001202 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.4579 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.3177 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 1 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 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 0.069 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.36 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.009376 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0.9837 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.9552 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) negative regulation of metabolic process 0.03079 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.1514 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.9883 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.8996 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 0.03464 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 0.0006511 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 0 Informative Direct
Biological Process (BP) chromosome organization 7.309e-13 Informative Direct
Biological Process (BP) proteolysis 3.755e-15 Informative Direct
Biological Process (BP) cell cycle process 7.233e-05 Informative Direct
Biological Process (BP) regulation of apoptotic signaling pathway 2.099e-05 Informative Direct
Biological Process (BP) regulation of organelle organization 7.156e-05 Informative Direct
Biological Process (BP) immune response 7.975e-12 Informative Direct
Biological Process (BP) response to DNA damage stimulus 5.42e-05 Informative Direct
Biological Process (BP) protein oligomerization 0.0005271 Informative Direct
Biological Process (BP) apoptotic process 0.4697 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.6397 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.1026 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.5495 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.6699 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) response to hormone stimulus 0.8156 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 1 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 1 Informative Inherited
Biological Process (BP) response to cytokine stimulus 0.3818 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 1 Informative Inherited
Biological Process (BP) negative regulation of protein metabolic process 0.3364 Informative Inherited
Biological Process (BP) negative regulation of catalytic activity 0.003659 Informative Inherited
Biological Process (BP) microtubule-based process 0.9239 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) regulation of protein localization 0.003526 Informative Inherited
Biological Process (BP) regulation of immune effector process 0.3394 Informative Inherited
Biological Process (BP) regulation of secretion 1 Informative Inherited
Biological Process (BP) negative regulation of immune system process 0.8775 Informative Inherited
Biological Process (BP) regulation of cell activation 1 Informative Inherited
Biological Process (BP) secretion by cell 0.9625 Informative Inherited
Biological Process (BP) regulation of locomotion 0.9971 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 0.01798 Informative Inherited
Biological Process (BP) positive regulation of protein metabolic process 0.00258 Informative Inherited
Biological Process (BP) positive regulation of nucleobase-containing compound metabolic process 1 Informative Inherited
Biological Process (BP) regulation of lipid metabolic process 0.7041 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.006298 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.176 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.499 Informative Inherited
Biological Process (BP) regulation of cell development 0.8109 Informative Inherited
Biological Process (BP) carbohydrate biosynthetic process 0.7397 Informative Inherited
Biological Process (BP) synaptic transmission 1 Informative Inherited
Biological Process (BP) regulation of defense response 0.95 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 0.06463 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.002485 Informative Inherited
Biological Process (BP) generation of neurons 0.9747 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 vesicle-mediated transport 0.1542 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 transcription from RNA polymerase II promoter 1 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.00146 Informative Inherited
Biological Process (BP) regulation of mitotic cell cycle 0.01046 Informative Inherited
Biological Process (BP) regulation of cytokine production 0.02061 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 1 Informative Inherited
Biological Process (BP) posttranscriptional regulation of gene expression 0.1799 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.3976 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 0.7309 Informative Inherited
Biological Process (BP) muscle structure development 0.5202 Informative Inherited
Biological Process (BP) muscle tissue development 1 Informative Inherited
Biological Process (BP) ncRNA metabolic process 1 Informative Inherited
Biological Process (BP) cell wall organization or biogenesis 0.4638 Informative Inherited
Biological Process (BP) response to organonitrogen compound 0.9992 Informative Inherited
Biological Process (BP) regulation of hormone levels 0.8959 Informative Inherited
Biological Process (BP) response to oxidative stress 1 Informative Inherited
Biological Process (BP) epithelium development 0.2742 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.5882 Informative Inherited
Biological Process (BP) regulation of kinase activity 0.3648 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 0.9653 Informative Inherited
Biological Process (BP) phosphorylation 1 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.2246 Informative Inherited
Biological Process (BP) protein localization to organelle 0.04947 Informative Inherited
Biological Process (BP) protein transport 0.002933 Informative Inherited
Biological Process (BP) cytoplasmic transport 0.5772 Informative Inherited
Biological Process (BP) defense response 0.409 Informative Inherited
Biological Process (BP) immune effector process 0.02318 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.2909 Informative Inherited
Biological Process (BP) leukocyte activation 0.9679 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.2046 Informative Inherited
Biological Process (BP) regulation of immune response 0.6322 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 0.0001481 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 1.778e-14 Highly Informative Direct
Biological Process (BP) internal protein amino acid acetylation 7.645e-12 Highly Informative Direct
Biological Process (BP) regulation of protein stability 8.131e-11 Highly Informative Direct
Biological Process (BP) regulation of protein ubiquitination 1.006e-10 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 6.349e-10 Highly Informative Direct
Biological Process (BP) regulation of innate immune response 7.306e-10 Highly Informative Direct
Biological Process (BP) peptidyl-lysine modification 6.617e-09 Highly Informative Direct
Biological Process (BP) regulation of ligase activity 7.199e-08 Highly Informative Direct
Biological Process (BP) response to ionizing radiation 1.808e-07 Highly Informative Direct
Biological Process (BP) positive regulation of catabolic process 4.436e-07 Highly Informative Direct
Biological Process (BP) leukocyte activation involved in immune response 5.019e-07 Highly Informative Direct
Biological Process (BP) DNA recombination 5.324e-07 Highly Informative Direct
Biological Process (BP) regulation of proteolysis 1.397e-06 Highly Informative Direct
Biological Process (BP) protein import 3.298e-06 Highly Informative Direct
Biological Process (BP) negative regulation of apoptotic signaling pathway 7.214e-06 Highly Informative Direct
Biological Process (BP) B cell activation 1.033e-05 Highly Informative Direct
Biological Process (BP) response to topologically incorrect protein 2.205e-05 Highly Informative Direct
Biological Process (BP) neural tube development 9.879e-05 Highly Informative Direct
Biological Process (BP) positive regulation of defense response 0.0001409 Highly Informative Direct
Biological Process (BP) regulation of autophagy 0.0002769 Highly Informative Direct
Biological Process (BP) immune response-activating signal transduction 0.0003962 Highly Informative Direct
Biological Process (BP) innate immune response 0.0004193 Highly Informative Direct
Biological Process (BP) double-strand break repair 0.0005485 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 0.0008304 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 0.0009382 Highly Informative Direct
Biological Process (BP) negative regulation of endopeptidase activity 0.74 Highly Informative Inherited
Biological Process (BP) positive regulation of organelle organization 0.1194 Highly Informative Inherited
Biological Process (BP) regulation of intrinsic apoptotic signaling pathway 1 Highly Informative Inherited
Biological Process (BP) positive regulation of endopeptidase activity 0.2503 Highly Informative Inherited
Biological Process (BP) cell wall macromolecule biosynthetic process 0.04443 Highly Informative Inherited
Biological Process (BP) cell wall polysaccharide metabolic process 0.01599 Highly Informative Inherited
Biological Process (BP) glial cell differentiation 0.252 Highly Informative Inherited
Biological Process (BP) regulation of mitosis 0.01188 Highly Informative Inherited
Biological Process (BP) negative regulation of mitotic cell cycle phase transition 0.4231 Highly Informative Inherited
Biological Process (BP) negative regulation of cellular catabolic process 0.3844 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 involved in symbiotic interaction 0.1098 Highly Informative Inherited
Biological Process (BP) interaction with host 0.5887 Highly Informative Inherited
Biological Process (BP) negative regulation of protein modification process 0.2045 Highly Informative Inherited
Biological Process (BP) cellular polysaccharide biosynthetic process 0.02979 Highly Informative Inherited
Biological Process (BP) regulation of production of molecular mediator of immune response 0.5792 Highly Informative Inherited
Biological Process (BP) negative regulation of leukocyte activation 0.02896 Highly Informative Inherited
Biological Process (BP) regulation of T cell activation 0.2498 Highly Informative Inherited
Biological Process (BP) negative regulation of multicellular organismal process 1 Highly Informative Inherited
Biological Process (BP) negative regulation of locomotion 0.4534 Highly Informative Inherited
Biological Process (BP) regulation of translation 1 Highly Informative Inherited
Biological Process (BP) positive regulation of cell cycle process 0.1608 Highly Informative Inherited
Biological Process (BP) regulation of cellular ketone metabolic process 0.1681 Highly Informative Inherited
Biological Process (BP) negative regulation of lipid biosynthetic process 0.003156 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 1 Highly Informative Inherited
Biological Process (BP) DNA modification 0.9942 Highly Informative Inherited
Biological Process (BP) leukocyte homeostasis 0.2673 Highly Informative Inherited
Biological Process (BP) ubiquitin-dependent protein catabolic process 1 Highly Informative Inherited
Biological Process (BP) eye morphogenesis 0.7927 Highly Informative Inherited
Biological Process (BP) cell fate commitment 1 Highly Informative Inherited
Biological Process (BP) leukocyte mediated immunity 0.6762 Highly Informative Inherited
Biological Process (BP) membrane fusion 0.0369 Highly Informative Inherited
Biological Process (BP) regulation of protein complex assembly 0.4112 Highly Informative Inherited
Biological Process (BP) gene silencing 0.1858 Highly Informative Inherited
Biological Process (BP) positive regulation of cytokine production 0.1082 Highly Informative Inherited
Biological Process (BP) regulation of G1/S transition of mitotic cell cycle 0.8144 Highly Informative Inherited
Biological Process (BP) DNA damage checkpoint 0.9712 Highly Informative Inherited
Biological Process (BP) nucleus organization 0.6515 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.3306 Highly Informative Inherited
Biological Process (BP) histone modification 1 Highly Informative Inherited
Biological Process (BP) establishment of protein localization to organelle 0.01231 Highly Informative Inherited
Biological Process (BP) regulation of angiogenesis 0.01568 Highly Informative Inherited
Biological Process (BP) autophagy 0.005153 Highly Informative Inherited
Biological Process (BP) cellular response to starvation 1 Highly Informative Inherited
Biological Process (BP) muscle organ development 0.2157 Highly Informative Inherited
Biological Process (BP) regulation of mitochondrion organization 0.06113 Highly Informative Inherited
Biological Process (BP) cellular hormone metabolic process 0.9991 Highly Informative Inherited
Biological Process (BP) response to fungus 0.001598 Highly Informative Inherited
Biological Process (BP) intrinsic apoptotic signaling pathway 0.03566 Highly Informative Inherited
Biological Process (BP) epithelial cell development 0.0151 Highly Informative Inherited
Biological Process (BP) positive regulation of protein kinase activity 0.3139 Highly Informative Inherited
Biological Process (BP) protein phosphorylation 1 Highly Informative Inherited
Biological Process (BP) regulation of protein complex disassembly 0.03554 Highly Informative Inherited
Biological Process (BP) regulation of microtubule polymerization or depolymerization 0.3945 Highly Informative Inherited
Biological Process (BP) negative regulation of cytoskeleton organization 0.05215 Highly Informative Inherited
Biological Process (BP) protein deacylation 1 Highly Informative Inherited
Biological Process (BP) T cell differentiation 0.01951 Highly Informative Inherited
Biological Process (BP) alpha-beta T cell activation 0.09269 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 2.112e-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 0 Informative Direct
Molecular Function (MF) zinc ion binding 0 Informative Direct
Molecular Function (MF) chromatin binding 8.225e-06 Informative Direct
Molecular Function (MF) enzyme binding 0.0001047 Informative Direct
Molecular Function (MF) carbohydrate derivative binding 0.5952 Informative Inherited
Molecular Function (MF) receptor binding 0.873 Informative Inherited
Molecular Function (MF) RNA binding 1 Informative Inherited
Molecular Function (MF) transferase activity, transferring acyl groups 0.5791 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 0.7779 Informative Inherited
Molecular Function (MF) peptidase activity 0.1155 Informative Inherited
Molecular Function (MF) hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds 0.937 Informative Inherited
Molecular Function (MF) carboxylic acid binding 0.7777 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) deacetylase activity 0.0001133 Highly Informative Direct
Molecular Function (MF) acetyltransferase activity 0.0009203 Highly Informative Direct
Molecular Function (MF) protein domain specific binding 0.001175 Highly Informative Inherited
Molecular Function (MF) structure-specific DNA binding 0.461 Highly Informative Inherited
Molecular Function (MF) cytokine receptor binding 1 Highly Informative Inherited
Molecular Function (MF) endopeptidase activity 0.2142 Highly Informative Inherited
Molecular Function (MF) transcription factor binding transcription factor activity 0.759 Highly Informative Inherited
Molecular Function (MF) amino acid binding 0.1774 Highly Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 1.791e-06 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 0.8156 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.06945 Least Informative Inherited
Cellular Component (CC) protein complex 0.2077 Least Informative Inherited
Cellular Component (CC) nuclear part 2.328e-08 Moderately Informative Direct
Cellular Component (CC) ribonucleoprotein complex 0.5883 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 0.0212 Moderately Informative Inherited
Cellular Component (CC) plasma membrane 1 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.3694 Moderately Informative Inherited
Cellular Component (CC) ubiquitin ligase complex 0 Informative Direct
Cellular Component (CC) chromosome 2.806e-10 Informative Direct
Cellular Component (CC) endosome 0.0002057 Informative Direct
Cellular Component (CC) lytic vacuole 0.259 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 0.001888 Informative Inherited
Cellular Component (CC) mitochondrial membrane part 1 Informative Inherited
Cellular Component (CC) vacuolar part 0.006567 Informative Inherited
Cellular Component (CC) contractile fiber part 0.1366 Informative Inherited
Cellular Component (CC) nuclear DNA-directed RNA polymerase complex 1 Informative Inherited
Cellular Component (CC) nucleoplasm part 0.0555 Informative Inherited
Cellular Component (CC) nuclear ubiquitin ligase complex 1.474e-14 Highly Informative Direct
Cellular Component (CC) nuclear body 1.589e-15 Highly Informative Direct
Cellular Component (CC) cytoplasmic mRNA processing body 0 Highly Informative Direct
Cellular Component (CC) sarcolemma 8.132e-11 Highly Informative Direct
Cellular Component (CC) intrinsic to organelle membrane 9.131e-05 Highly Informative Direct
Cellular Component (CC) lysosome 0.3206 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 0.09213 Highly Informative Inherited
Cellular Component (CC) organelle outer membrane 0.2273 Highly Informative Inherited
Cellular Component (CC) sarcomere 0.6925 Highly Informative Inherited
Cellular Component (CC) chromatin 0.8317 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 morphology0.3864Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of muscle physiology0.5681Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of digit0.7549Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the globe0.7683Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lower limb0.9233Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of toe0.1038InformativeInherited
Phenotypic Abnormality (PA)Muscular hypotonia0.2907InformativeInherited
Phenotypic Abnormality (PA)Generalized neonatal hypotonia6.986e-06Highly InformativeDirect
Phenotypic Abnormality (PA)Brushfield spots0.0001321Highly InformativeDirect
Phenotypic Abnormality (PA)Clubbing of toes0.0008987Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cellular phenotype0.05738Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.8261Least InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.02928Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal chromosome stability0.000397InformativeDirect
Mammalian Phenotype (MP)abnormal interleukin secretion0.611InformativeInherited
Mammalian Phenotype (MP)chromosomal instability2.743e-05Highly InformativeDirect
Mammalian Phenotype (MP)abnormal interleukin-2 secretion0.04091Highly 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)gonad0.001832Least InformativeInherited
Xenopus ANatomical entity (XAN)genital system0.002271Least InformativeInherited
Xenopus ANatomical entity (XAN)ovary0.0006074Moderately 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)Hydrolases1.917e-15Least InformativeDirect
Enzyme Commission (EC)Transferring phosphorous-containing groups1Least InformativeInherited
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0Moderately InformativeDirect
Enzyme Commission (EC)Glycosyltransferases9.282e-09Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases9e-05Moderately InformativeDirect
Enzyme Commission (EC)Isomerases0.03085Moderately InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0.08362Moderately 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 amides0.1456InformativeInherited
Enzyme Commission (EC)Acid--amino-acid ligases (peptide synthases)0.2243InformativeInherited
Enzyme Commission (EC)Peptidylprolyl isomerase7.776e-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 processHost-virus interaction1.063e-11Moderately InformativeDirect
Biological processTranscription regulation1.022e-10Moderately InformativeDirect
Biological processCell cycle3.114e-10Moderately InformativeDirect
Biological processDNA damage5.083e-06Moderately InformativeDirect
Biological processDifferentiation0.0007372Moderately InformativeDirect
Biological processMitosis0InformativeDirect
Biological processUbl conjugation pathway0InformativeDirect
Biological processEndocytosis3.498e-14InformativeDirect
Biological processWnt signaling pathway7.372e-14InformativeDirect
Biological processmRNA splicing7.982e-10InformativeDirect
Biological processPlant defense6.879e-06InformativeDirect
Biological processMeiosis1.827e-05InformativeDirect
Biological processViral immunoevasion0.03309InformativeInherited
Biological processAntiviral defense0Highly InformativeDirect
Biological processNotch signaling pathway0Highly InformativeDirect
Biological processAutophagy1.256e-12Highly InformativeDirect
Biological processVirus exit from host cell3.765e-06Highly InformativeDirect
Biological processModulation of host cell apoptosis by virus0.0001434Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
Cellular componentEndosome0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle8.988e-14Moderately InformativeDirect
Cellular componentGolgi apparatus4.892e-10Moderately InformativeDirect
Cellular componentCell junction1.679e-06Moderately InformativeDirect
Cellular componentMitochondrion1Moderately InformativeInherited
Cellular componentLysosome0InformativeDirect
Cellular componentPeroxisome0InformativeDirect
Cellular componentSpliceosome1.047e-12InformativeDirect
Cellular componentChromosome8.095e-12InformativeDirect
Cellular componentVacuole7.408e-08InformativeDirect
Cellular componentMitochondrion outer membrane1.773e-07InformativeDirect
Cellular componentSynapse1.742e-06InformativeDirect
Cellular componentHost cytoplasm2.511e-05InformativeDirect
Cellular componentLipid droplet1.756e-06Highly InformativeDirect
Cellular componentHost endosome0.0003838Highly InformativeDirect
Coding sequence diversityAlternative splicing1.275e-14Least InformativeDirect
Developmental stageEarly protein0.0001762Least InformativeDirect
DiseaseTumor suppressor8.611e-05Moderately InformativeDirect
DiseaseOsteopetrosis6.555e-08Highly InformativeDirect
DomainTransmembrane1Least InformativeInherited
DomainCoiled coil0Moderately InformativeDirect
DomainZinc-finger0Moderately InformativeDirect
DomainBromodomain8.672e-07Highly InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationLigase0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationDevelopmental protein7.386e-10Moderately InformativeDirect
Post-translational modificationActivator1.176e-05Moderately InformativeDirect
Post-translational modificationProtease0.01414Moderately InformativeInherited
Post-translational modificationChromatin regulator0InformativeDirect
Post-translational modificationThiol protease0InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationAcetylation1.743e-13Least InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond2.559e-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 metabolism8.993e-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 ]