SUPERFAMILY 1.75 HMM library and genome assignments server

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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 (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 process0.00000000016450Least InformativeDirect
Biological Process (BP)protein metabolic process0.00000004120Least InformativeDirect
Biological Process (BP)regulation of metabolic process0.23840.005382Least InformativeInherited
Biological Process (BP)regulation of cellular process0.00041810.1103Least InformativeInherited
Biological Process (BP)response to stimulus0.73470.01269Least InformativeInherited
Biological Process (BP)single-organism cellular process0.34380.9583Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.0078280.003011Least InformativeInherited
Biological Process (BP)organelle organization0.00013370.000000000000003741Moderately InformativeDirect
Biological Process (BP)positive regulation of molecular function0.0020590.1098Moderately InformativeInherited
Biological Process (BP)cellular protein modification process0.011920Moderately InformativeInherited
Biological Process (BP)regulation of biological quality0.98961Moderately InformativeInherited
Biological Process (BP)regulation of catalytic activity0.17331Moderately InformativeInherited
Biological Process (BP)cellular catabolic process0.055520Moderately InformativeInherited
Biological Process (BP)cellular response to stress0.071330.0000000007041Moderately InformativeInherited
Biological Process (BP)cellular response to chemical stimulus0.12191Moderately InformativeInherited
Biological Process (BP)signal transduction0.60311Moderately InformativeInherited
Biological Process (BP)protein modification by small protein conjugation or removal0.0000000000013870InformativeDirect
Biological Process (BP)protein catabolic process0.000029370InformativeDirect
Biological Process (BP)regulation of peptidase activity0.00015050.0005666InformativeDirect
Biological Process (BP)cellular macromolecule catabolic process0.00022910InformativeDirect
Biological Process (BP)positive regulation of hydrolase activity0.012131InformativeInherited
Biological Process (BP)proteolysis0.0043210.000000000000005576InformativeInherited
Biological Process (BP)apoptotic process0.00011730.4814InformativeInherited
Biological Process (BP)response to oxidative stress0.0031081InformativeInherited
Biological Process (BP)intracellular signal transduction0.011220.7143InformativeInherited
Biological Process (BP)positive regulation of endopeptidase activity0.00000042350.2648Highly InformativeInherited
Biological Process (BP)intrinsic apoptotic signaling pathway0.0000025520.02664Highly InformativeInherited
Molecular Function (MF)binding0.00090230Least 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 organelle0.00010390.7417Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.22160.05835Least InformativeInherited
Cellular Component (CC)protein complex0.00000023820.2035Least InformativeInherited
Cellular Component (CC)intracellular organelle lumen0.11850.4767Moderately InformativeInherited
Cellular Component (CC)nuclear part0.0022150.00000001324Moderately InformativeInherited
Cellular Component (CC)ubiquitin ligase complex00InformativeDirect
Cellular Component (CC)nucleoplasm part0.37910.1107InformativeInherited
Cellular Component (CC)nuclear ubiquitin ligase complex0.0000000027850.00000000000001045Highly InformativeDirect
Cellular Component (CC)nuclear body0.0000071770.00000000000008838Highly 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 0.005382 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.003011 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.1103 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.9583 Least Informative Inherited
Biological Process (BP) response to stimulus 0.01269 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 0.000000000000003741 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 0 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0.000004947 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.0000000007041 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.000000001177 Moderately Informative Direct
Biological Process (BP) immune system process 0.000000000002858 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0.4282 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.3818 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.8877 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.05569 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.05912 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.009238 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.4629 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.04804 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 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 0.1098 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.3267 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.006111 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 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 macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.2669 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.06236 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.9022 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 0.02334 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 0.0005666 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 0 Informative Direct
Biological Process (BP) chromosome organization 0.00000000000008605 Informative Direct
Biological Process (BP) proteolysis 0.000000000000005576 Informative Direct
Biological Process (BP) cell cycle process 0.00016 Informative Direct
Biological Process (BP) regulation of organelle organization 0.00009761 Informative Direct
Biological Process (BP) immune response 0.000000000002467 Informative Direct
Biological Process (BP) response to DNA damage stimulus 0.0001627 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0.0004092 Informative Direct
Biological Process (BP) protein oligomerization 0.0005823 Informative Direct
Biological Process (BP) apoptotic process 0.4814 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.6891 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.07018 Informative Inherited
Biological Process (BP) regulation of apoptotic process 1 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.4579 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.5732 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 0.6492 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) 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 0.9149 Informative Inherited
Biological Process (BP) negative regulation of protein metabolic process 0.002381 Informative Inherited
Biological Process (BP) negative regulation of catalytic activity 0.005182 Informative Inherited
Biological Process (BP) microtubule-based process 0.8934 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 0.1439 Informative Inherited
Biological Process (BP) regulation of immune effector process 0.2978 Informative Inherited
Biological Process (BP) regulation of secretion 1 Informative Inherited
Biological Process (BP) regulation of establishment of protein localization 1 Informative Inherited
Biological Process (BP) secretion by cell 0.9315 Informative Inherited
Biological Process (BP) regulation of locomotion 0.9708 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 0.02939 Informative Inherited
Biological Process (BP) positive regulation of nitrogen compound metabolic process 1 Informative Inherited
Biological Process (BP) regulation of lipid metabolic process 0.6694 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.01934 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.4248 Informative Inherited
Biological Process (BP) regulation of cell development 0.7414 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.2021 Informative Inherited
Biological Process (BP) carbohydrate biosynthetic process 0.7292 Informative Inherited
Biological Process (BP) synaptic transmission 1 Informative Inherited
Biological Process (BP) regulation of defense response 0.9295 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 0.07735 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.003652 Informative Inherited
Biological Process (BP) generation of neurons 0.9551 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 0.1247 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 0.004136 Informative Inherited
Biological Process (BP) regulation of cytokine production 0.01817 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 0.3974 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 0.6909 Informative Inherited
Biological Process (BP) muscle structure development 0.4954 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 0.8669 Informative Inherited
Biological Process (BP) regulation of hormone levels 0.8864 Informative Inherited
Biological Process (BP) response to other organism 0.4889 Informative Inherited
Biological Process (BP) response to oxidative stress 1 Informative Inherited
Biological Process (BP) epithelium development 0.2486 Informative Inherited
Biological Process (BP) positive regulation of protein modification process 1 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.7143 Informative Inherited
Biological Process (BP) regulation of kinase activity 0.4125 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 0.9506 Informative Inherited
Biological Process (BP) phosphorylation 1 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.2583 Informative Inherited
Biological Process (BP) protein localization to organelle 0.01264 Informative Inherited
Biological Process (BP) protein transport 0.002654 Informative Inherited
Biological Process (BP) cytoplasmic transport 0.5803 Informative Inherited
Biological Process (BP) defense response 0.3588 Informative Inherited
Biological Process (BP) immune effector process 0.02313 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.2781 Informative Inherited
Biological Process (BP) leukocyte activation 0.9682 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.1582 Informative Inherited
Biological Process (BP) regulation of immune response 0.6083 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 0.0001171 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 0.0000000000001576 Highly Informative Direct
Biological Process (BP) regulation of protein ubiquitination 0.000000000007677 Highly Informative Direct
Biological Process (BP) internal protein amino acid acetylation 0.000000000007852 Highly Informative Direct
Biological Process (BP) regulation of protein stability 0.00000000007061 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 0.0000000004842 Highly Informative Direct
Biological Process (BP) regulation of innate immune response 0.0000000007813 Highly Informative Direct
Biological Process (BP) peptidyl-lysine modification 0.000000005857 Highly Informative Direct
Biological Process (BP) regulation of ligase activity 0.0000000636 Highly Informative Direct
Biological Process (BP) DNA recombination 0.0000001635 Highly Informative Direct
Biological Process (BP) positive regulation of catabolic process 0.00000019 Highly Informative Direct
Biological Process (BP) response to ionizing radiation 0.0000004168 Highly Informative Direct
Biological Process (BP) leukocyte activation involved in immune response 0.0000005151 Highly Informative Direct
Biological Process (BP) protein import 0.000002918 Highly Informative Direct
Biological Process (BP) regulation of proteolysis 0.000005244 Highly Informative Direct
Biological Process (BP) B cell activation 0.00001031 Highly Informative Direct
Biological Process (BP) response to topologically incorrect protein 0.00001248 Highly Informative Direct
Biological Process (BP) negative regulation of apoptotic signaling pathway 0.00001863 Highly Informative Direct
Biological Process (BP) neural tube development 0.00009409 Highly Informative Direct
Biological Process (BP) positive regulation of defense response 0.0001347 Highly Informative Direct
Biological Process (BP) regulation of autophagy 0.0001602 Highly Informative Direct
Biological Process (BP) immune response-activating signal transduction 0.0003816 Highly Informative Direct
Biological Process (BP) innate immune response 0.0004554 Highly Informative Direct
Biological Process (BP) regulation of DNA metabolic process 0.0006746 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 0.0007619 Highly Informative Direct
Biological Process (BP) negative regulation of endopeptidase activity 0.748 Highly Informative Inherited
Biological Process (BP) positive regulation of organelle organization 0.1918 Highly Informative Inherited
Biological Process (BP) regulation of intrinsic apoptotic signaling pathway 1 Highly Informative Inherited
Biological Process (BP) positive regulation of endopeptidase activity 0.2648 Highly Informative Inherited
Biological Process (BP) regulation of mitochondrion organization 0.1607 Highly Informative Inherited
Biological Process (BP) cellular component macromolecule biosynthetic process 0.01125 Highly Informative Inherited
Biological Process (BP) cell wall biogenesis 0.01218 Highly Informative Inherited
Biological Process (BP) cell wall macromolecule metabolic process 1 Highly Informative Inherited
Biological Process (BP) glial cell differentiation 0.2483 Highly Informative Inherited
Biological Process (BP) regulation of mitosis 0.006577 Highly Informative Inherited
Biological Process (BP) negative regulation of mitotic cell cycle phase transition 0.2387 Highly Informative Inherited
Biological Process (BP) negative regulation of cellular catabolic process 0.3125 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 0.1561 Highly Informative Inherited
Biological Process (BP) symbiosis, encompassing mutualism through parasitism 0.7021 Highly Informative Inherited
Biological Process (BP) negative regulation of protein modification process 0.4389 Highly Informative Inherited
Biological Process (BP) cellular polysaccharide biosynthetic process 0.02892 Highly Informative Inherited
Biological Process (BP) regulation of production of molecular mediator of immune response 0.5651 Highly Informative Inherited
Biological Process (BP) negative regulation of multicellular organismal process 1 Highly Informative Inherited
Biological Process (BP) negative regulation of locomotion 0.4195 Highly Informative Inherited
Biological Process (BP) positive regulation of cell cycle process 0.133 Highly Informative Inherited
Biological Process (BP) regulation of cellular ketone metabolic process 0.1513 Highly Informative Inherited
Biological Process (BP) negative regulation of lipid biosynthetic process 0.002253 Highly Informative Inherited
Biological Process (BP) regulation of T cell activation 0.4628 Highly Informative Inherited
Biological Process (BP) negative regulation of cell activation 0.8587 Highly Informative Inherited
Biological Process (BP) negative regulation of immune system process 0.9769 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 1 Highly Informative Inherited
Biological Process (BP) regulation of leukocyte differentiation 0.9075 Highly Informative Inherited
Biological Process (BP) DNA damage checkpoint 1 Highly Informative Inherited
Biological Process (BP) DNA modification 0.984 Highly Informative Inherited
Biological Process (BP) leukocyte homeostasis 0.2691 Highly Informative Inherited
Biological Process (BP) ubiquitin-dependent protein catabolic process 1 Highly Informative Inherited
Biological Process (BP) eye morphogenesis 0.7747 Highly Informative Inherited
Biological Process (BP) cell fate commitment 1 Highly Informative Inherited
Biological Process (BP) leukocyte mediated immunity 0.6668 Highly Informative Inherited
Biological Process (BP) membrane fusion 0.03326 Highly Informative Inherited
Biological Process (BP) regulation of protein complex assembly 0.3853 Highly Informative Inherited
Biological Process (BP) gene silencing 0.1634 Highly Informative Inherited
Biological Process (BP) positive regulation of cytokine production 0.1049 Highly Informative Inherited
Biological Process (BP) regulation of G1/S transition of mitotic cell cycle 0.8182 Highly Informative Inherited
Biological Process (BP) nucleus organization 0.6549 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.3214 Highly Informative Inherited
Biological Process (BP) regulation of translation 0.1571 Highly Informative Inherited
Biological Process (BP) histone modification 0.9733 Highly Informative Inherited
Biological Process (BP) establishment of protein localization to organelle 0.0107 Highly Informative Inherited
Biological Process (BP) regulation of angiogenesis 0.01519 Highly Informative Inherited
Biological Process (BP) autophagy 0.004713 Highly Informative Inherited
Biological Process (BP) cellular response to starvation 1 Highly Informative Inherited
Biological Process (BP) muscle organ development 0.1979 Highly Informative Inherited
Biological Process (BP) cellular hormone metabolic process 0.9973 Highly Informative Inherited
Biological Process (BP) response to fungus 0.001556 Highly Informative Inherited
Biological Process (BP) intrinsic apoptotic signaling pathway 0.02664 Highly Informative Inherited
Biological Process (BP) epithelial cell development 0.01314 Highly Informative Inherited
Biological Process (BP) positive regulation of protein kinase activity 0.2994 Highly Informative Inherited
Biological Process (BP) protein phosphorylation 1 Highly Informative Inherited
Biological Process (BP) regulation of protein complex disassembly 0.03213 Highly Informative Inherited
Biological Process (BP) regulation of microtubule polymerization or depolymerization 0.3993 Highly Informative Inherited
Biological Process (BP) negative regulation of cytoskeleton organization 0.0376 Highly Informative Inherited
Biological Process (BP) protein deacylation 1 Highly Informative Inherited
Biological Process (BP) T cell differentiation 0.01894 Highly Informative Inherited
Biological Process (BP) alpha-beta T cell activation 0.09259 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 0.0000001522 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) zinc ion binding 0 Informative Direct
Molecular Function (MF) chromatin binding 0.000003702 Informative Direct
Molecular Function (MF) enzyme binding 0.000246 Informative Direct
Molecular Function (MF) carbohydrate derivative binding 0.5813 Informative Inherited
Molecular Function (MF) receptor binding 0.8904 Informative Inherited
Molecular Function (MF) RNA binding 1 Informative Inherited
Molecular Function (MF) transferase activity, transferring acyl groups 0.5656 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 0.7836 Informative Inherited
Molecular Function (MF) peptidase activity 0.103 Informative Inherited
Molecular Function (MF) hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds 0.9264 Informative Inherited
Molecular Function (MF) carboxylic acid binding 0.7605 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 0.00001283 Highly Informative Direct
Molecular Function (MF) deacetylase activity 0.00009224 Highly Informative Direct
Molecular Function (MF) acetyltransferase activity 0.0008465 Highly Informative Direct
Molecular Function (MF) protein domain specific binding 0.001591 Highly Informative Inherited
Molecular Function (MF) structure-specific DNA binding 0.4264 Highly Informative Inherited
Molecular Function (MF) cytokine receptor binding 1 Highly Informative Inherited
Molecular Function (MF) endopeptidase activity 0.2152 Highly Informative Inherited
Molecular Function (MF) amino acid binding 0.1691 Highly Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 0.0000007615 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 0.7417 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.05835 Least Informative Inherited
Cellular Component (CC) protein complex 0.2035 Least Informative Inherited
Cellular Component (CC) nuclear part 0.00000001324 Moderately Informative Direct
Cellular Component (CC) ribonucleoprotein complex 0.5667 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 0.03845 Moderately Informative Inherited
Cellular Component (CC) plasma membrane 1 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.4767 Moderately Informative Inherited
Cellular Component (CC) ubiquitin ligase complex 0 Informative Direct
Cellular Component (CC) chromosome 0.000000001617 Informative Direct
Cellular Component (CC) endosome 0.0001349 Informative Direct
Cellular Component (CC) lytic vacuole 0.2416 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 0.001559 Informative Inherited
Cellular Component (CC) mitochondrial membrane part 1 Informative Inherited
Cellular Component (CC) vacuolar part 0.005556 Informative Inherited
Cellular Component (CC) contractile fiber part 0.1256 Informative Inherited
Cellular Component (CC) nuclear DNA-directed RNA polymerase complex 1 Informative Inherited
Cellular Component (CC) nucleoplasm part 0.1107 Informative Inherited
Cellular Component (CC) nuclear ubiquitin ligase complex 0.00000000000001045 Highly Informative Direct
Cellular Component (CC) nuclear body 0.00000000000008838 Highly Informative Direct
Cellular Component (CC) cytoplasmic mRNA processing body 0 Highly Informative Direct
Cellular Component (CC) sarcolemma 0.00000000007515 Highly Informative Direct
Cellular Component (CC) intrinsic to organelle membrane 0.00007334 Highly Informative Direct
Cellular Component (CC) lysosome 0.3123 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 0.08675 Highly Informative Inherited
Cellular Component (CC) organelle outer membrane 0.2159 Highly Informative Inherited
Cellular Component (CC) sarcomere 0.6924 Highly Informative Inherited
Cellular Component (CC) chromatin 0.7185 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)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 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 hypotonia0.000007104Highly 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 phenotype0.05969Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.8027Least InformativeInherited
Mammalian Phenotype (MP)abnormal tumor incidence0.005402Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.0263Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal interleukin secretion0.6213InformativeInherited
Mammalian Phenotype (MP)chromosomal instability0.00002683Highly InformativeDirect
Mammalian Phenotype (MP)abnormal interleukin-2 secretion0.03972Highly 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 variant0.000000000000001122Least InformativeDirect
Worm Phenotype (WP)cell physiology variant0.5632Least InformativeInherited
Worm Phenotype (WP)protein aggregation variant0Moderately InformativeDirect
Worm Phenotype (WP)pattern of transgene expression variant0.000000002914Moderately InformativeDirect
Worm Phenotype (WP)cell homeostasis metabolism variant0.00099Moderately InformativeDirect
Worm Phenotype (WP)cell stress response variant0.00000000714InformativeDirect
Worm Phenotype (WP)neuron development variant0.2742InformativeInherited
Worm Phenotype (WP)cell ionizing radiation response variant0.00000004226Highly 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)gonad0.00183Least InformativeInherited
Xenopus ANatomical entity (XAN)genital system0.002269Least InformativeInherited
Xenopus ANatomical entity (XAN)ovary0.0006067Moderately 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 cell0.00009658InformativeDirect
Plant ANatomical entity (PAN)leaf epidermis0.0001737Highly InformativeDirect
Plant ANatomical entity (PAN)trichome0.005802Highly InformativeInherited
Plant structure DEvelopment stage (PDE)pollen development stage0.00001142Moderately InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0.00000000000000215Least InformativeDirect
Enzyme Commission (EC)Transferring phosphorous-containing groups1Least InformativeInherited
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0Moderately InformativeDirect
Enzyme Commission (EC)Glycosyltransferases0.000000008709Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases0.00009089Moderately InformativeDirect
Enzyme Commission (EC)Isomerases0.03099Moderately InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0.08388Moderately 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 amides0.1461InformativeInherited
Enzyme Commission (EC)Acid--amino-acid ligases (peptide synthases)0.2254InformativeInherited
Enzyme Commission (EC)Peptidylprolyl isomerase0.0000000000007955Highly 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 regulation0.000000000001641Moderately InformativeDirect
Biological processHost-virus interaction0.000000000009488Moderately InformativeDirect
Biological processCell cycle0.0000000004858Moderately InformativeDirect
Biological processDNA damage0.00000466Moderately InformativeDirect
Biological processDifferentiation0.0006336Moderately InformativeDirect
Biological processMitosis0InformativeDirect
Biological processUbl conjugation pathway0InformativeDirect
Biological processEndocytosis0.00000000000002787InformativeDirect
Biological processWnt signaling pathway0.00000000000007084InformativeDirect
Biological processmRNA splicing0.0000000007713InformativeDirect
Biological processPlant defense0.000006239InformativeDirect
Biological processMeiosis0.00001727InformativeDirect
Biological processViral immunoevasion0.03356InformativeInherited
Biological processAntiviral defense0Highly InformativeDirect
Biological processNotch signaling pathway0Highly InformativeDirect
Biological processAutophagy0.0000000000002617Highly InformativeDirect
Biological processVirus exit from host cell0.000003702Highly 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 vesicle0.00000000000007395Moderately InformativeDirect
Cellular componentGolgi apparatus0.0000000004244Moderately InformativeDirect
Cellular componentCell junction0.000001639Moderately InformativeDirect
Cellular componentMitochondrion1Moderately InformativeInherited
Cellular componentLysosome0InformativeDirect
Cellular componentPeroxisome0InformativeDirect
Cellular componentSpliceosome0.000000000001053InformativeDirect
Cellular componentChromosome0.000000000007938InformativeDirect
Cellular componentVacuole0.00000007319InformativeDirect
Cellular componentMitochondrion outer membrane0.0000001545InformativeDirect
Cellular componentSynapse0.000001684InformativeDirect
Cellular componentHost cytoplasm0.00002517InformativeDirect
Cellular componentLipid droplet0.000001758Highly InformativeDirect
Cellular componentHost endosome0.0003839Highly InformativeDirect
Coding sequence diversityAlternative splicing0.000000000001386Least InformativeDirect
Developmental stageEarly protein0.0001762Least InformativeDirect
DiseaseTumor suppressor0.00009047Moderately InformativeDirect
DiseaseOsteopetrosis0.00000006619Highly InformativeDirect
DomainTransmembrane1Least InformativeInherited
DomainCoiled coil0Moderately InformativeDirect
DomainZinc-finger0Moderately InformativeDirect
DomainBromodomain0.0000008828Highly InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationLigase0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationDevelopmental protein0.0000000007628Moderately InformativeDirect
Post-translational modificationActivator0.00001159Moderately InformativeDirect
Post-translational modificationProtease0.01414Moderately InformativeInherited
Post-translational modificationChromatin regulator0InformativeDirect
Post-translational modificationThiol protease0InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationAcetylation0.0000000000001494Least InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond0.00000000001836Moderately 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 metabolism0.00000000001242Moderately InformativeDirect
UniPathway (UP)glycan biosynthesis0InformativeDirect
UniPathway (UP)cellulose metabolism0InformativeDirect

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 ]