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 (637) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 96,663 83,301 32
Proteins 86,610 75,585 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 process5.06e-100Least InformativeDirect
Biological Process (BP)protein metabolic process1.093e-070Least InformativeDirect
Biological Process (BP)regulation of cellular process0.00024480.1723Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.25820.01009Least InformativeInherited
Biological Process (BP)response to stimulus0.68860.007758Least InformativeInherited
Biological Process (BP)single-organism cellular process0.26420.8448Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.0056210.008101Least InformativeInherited
Biological Process (BP)organelle organization9.908e-051.777e-11Moderately InformativeDirect
Biological Process (BP)positive regulation of molecular function0.0011810.002582Moderately InformativeInherited
Biological Process (BP)cellular protein modification process0.019580Moderately InformativeInherited
Biological Process (BP)homeostatic process0.03960.8193Moderately InformativeInherited
Biological Process (BP)regulation of catalytic activity0.18411Moderately InformativeInherited
Biological Process (BP)cellular catabolic process0.10413.281e-14Moderately InformativeInherited
Biological Process (BP)macromolecule catabolic process0.0011270Moderately InformativeInherited
Biological Process (BP)cellular response to stress0.065171.359e-09Moderately InformativeInherited
Biological Process (BP)cellular response to chemical stimulus0.11471Moderately InformativeInherited
Biological Process (BP)signal transduction0.62091Moderately InformativeInherited
Biological Process (BP)protein catabolic process0.0001130InformativeDirect
Biological Process (BP)regulation of peptidase activity0.0001140.0002909InformativeDirect
Biological Process (BP)cell death0.00060263.639e-06InformativeDirect
Biological Process (BP)cellular macromolecule catabolic process0.00086040InformativeDirect
Biological Process (BP)regulation of cell cycle0.015260.04957InformativeInherited
Biological Process (BP)positive regulation of hydrolase activity0.00321InformativeInherited
Biological Process (BP)proteolysis0.010189.461e-13InformativeInherited
Biological Process (BP)response to oxidative stress0.0027141InformativeInherited
Biological Process (BP)intracellular signal transduction0.012190.6376InformativeInherited
Biological Process (BP)regulation of cysteine-type endopeptidase activity2.33e-062.174e-07Highly InformativeDirect
Biological Process (BP)positive regulation of peptidase activity4.493e-070.003253Highly InformativeInherited
Biological Process (BP)intrinsic apoptotic signaling pathway2.435e-060.02207Highly InformativeInherited
Molecular Function (MF)binding0.00046150Least 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 organelle8.311e-051Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.31880.03465Least InformativeInherited
Cellular Component (CC)protein complex1.399e-070.2282Least InformativeInherited
Cellular Component (CC)intracellular organelle lumen0.11090.9968Moderately InformativeInherited
Cellular Component (CC)nuclear part0.0011631.098e-08Moderately InformativeInherited
Cellular Component (CC)ubiquitin ligase complex00InformativeDirect
Cellular Component (CC)nucleoplasm part0.4960.2096InformativeInherited
Cellular Component (CC)nuclear ubiquitin ligase complex1.448e-080Highly InformativeDirect
Cellular Component (CC)nuclear body6.411e-064.303e-13Highly 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) developmental process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.01009 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.008101 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.1723 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.8448 Least Informative Inherited
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) response to stimulus 0.007758 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) organelle organization 1.777e-11 Moderately Informative Direct
Biological Process (BP) macromolecule catabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 8.526e-05 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 0 Moderately Informative Direct
Biological Process (BP) cellular response to stress 1.359e-09 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 3.155e-08 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 3.281e-14 Moderately Informative Direct
Biological Process (BP) immune system process 5.449e-13 Moderately Informative Direct
Biological Process (BP) positive regulation of response to stimulus 0.0009428 Moderately Informative Direct
Biological Process (BP) cellular localization 0.5064 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.02848 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.02538 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.002586 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.255 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.03675 Moderately Informative Inherited
Biological Process (BP) cell differentiation 0.8678 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 1 Moderately Informative Inherited
Biological Process (BP) regulation of programmed cell death 1 Moderately Informative Inherited
Biological Process (BP) homeostatic process 0.8193 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 0.9749 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.002582 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.3034 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) system process 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 1 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.1734 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.04819 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 1 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.8016 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.214 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.6382 Moderately Informative Inherited
Biological Process (BP) tissue development 1 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 1 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.02342 Moderately Informative Inherited
Biological Process (BP) single-organism biosynthetic process 1 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) aromatic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) protein catabolic process 0 Informative Direct
Biological Process (BP) regulation of peptidase activity 0.0002909 Informative Direct
Biological Process (BP) cell death 3.639e-06 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 0 Informative Direct
Biological Process (BP) chromosome organization 1.931e-15 Informative Direct
Biological Process (BP) cell cycle process 0.000658 Informative Direct
Biological Process (BP) proteolysis 9.461e-13 Informative Direct
Biological Process (BP) regulation of apoptotic signaling pathway 5.324e-05 Informative Direct
Biological Process (BP) regulation of organelle organization 0.0001374 Informative Direct
Biological Process (BP) immune response 1.044e-11 Informative Direct
Biological Process (BP) response to DNA damage stimulus 1.916e-05 Informative Direct
Biological Process (BP) protein complex assembly 3.072e-05 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0.0001585 Informative Direct
Biological Process (BP) protein transport 0.000813 Informative Direct
Biological Process (BP) negative regulation of protein metabolic process 0.0008826 Informative Direct
Biological Process (BP) negative regulation of signaling 0.8341 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.9156 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.2332 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 organic cyclic compound 1 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) negative regulation of cell death 1 Informative Inherited
Biological Process (BP) negative regulation of catalytic activity 0.00389 Informative Inherited
Biological Process (BP) microtubule-based process 1 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 immune effector process 0.4987 Informative Inherited
Biological Process (BP) regulation of establishment of protein localization 0.7759 Informative Inherited
Biological Process (BP) regulation of secretion 1 Informative Inherited
Biological Process (BP) secretion by cell 1 Informative Inherited
Biological Process (BP) regulation of locomotion 0.8421 Informative Inherited
Biological Process (BP) secondary metabolic process 1 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 0.04957 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.7347 Informative Inherited
Biological Process (BP) positive regulation of transport 1 Informative Inherited
Biological Process (BP) positive regulation of nitrogen compound metabolic process 1 Informative Inherited
Biological Process (BP) positive regulation of protein metabolic process 0.01249 Informative Inherited
Biological Process (BP) regulation of lipid metabolic process 0.5786 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.0411 Informative Inherited
Biological Process (BP) generation of neurons 0.9532 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.3531 Informative Inherited
Biological Process (BP) regulation of cell development 0.6752 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.1073 Informative Inherited
Biological Process (BP) carbohydrate biosynthetic process 0.6378 Informative Inherited
Biological Process (BP) sensory organ development 1 Informative Inherited
Biological Process (BP) organ morphogenesis 1 Informative Inherited
Biological Process (BP) transmission of nerve impulse 1 Informative Inherited
Biological Process (BP) cell-cell signaling 1 Informative Inherited
Biological Process (BP) regulation of defense response 0.9125 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 0.01805 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.001631 Informative Inherited
Biological Process (BP) 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) nitrogen compound transport 1 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.2247 Informative Inherited
Biological Process (BP) regulation of cytokine production 0.01287 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 0.3314 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) muscle structure development 0.5063 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 0.9294 Informative Inherited
Biological Process (BP) response to hormone stimulus 0.5218 Informative Inherited
Biological Process (BP) regulation of hormone levels 0.8284 Informative Inherited
Biological Process (BP) response to oxidative stress 1 Informative Inherited
Biological Process (BP) epithelium development 0.1672 Informative Inherited
Biological Process (BP) intracellular signal transduction 0.6376 Informative Inherited
Biological Process (BP) regulation of kinase activity 0.4658 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 0.848 Informative Inherited
Biological Process (BP) phosphorylation 1 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.1716 Informative Inherited
Biological Process (BP) pigment metabolic process 1 Informative Inherited
Biological Process (BP) protein localization to organelle 0.02814 Informative Inherited
Biological Process (BP) cytoplasmic transport 0.2981 Informative Inherited
Biological Process (BP) immune effector process 0.02395 Informative Inherited
Biological Process (BP) defense response 0.4067 Informative Inherited
Biological Process (BP) cell activation 0.1909 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.1474 Informative Inherited
Biological Process (BP) positive regulation of immune system process 0.1261 Informative Inherited
Biological Process (BP) regulation of immune response 0.4514 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 2.174e-07 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 1.823e-13 Highly Informative Direct
Biological Process (BP) regulation of protein stability 1.221e-11 Highly Informative Direct
Biological Process (BP) regulation of protein ubiquitination 1.731e-11 Highly Informative Direct
Biological Process (BP) regulation of response to biotic stimulus 1.842e-11 Highly Informative Direct
Biological Process (BP) internal protein amino acid acetylation 4.643e-11 Highly Informative Direct
Biological Process (BP) regulation of innate immune response 1.835e-10 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 2.461e-09 Highly Informative Direct
Biological Process (BP) peptidyl-lysine modification 1.063e-08 Highly Informative Direct
Biological Process (BP) DNA recombination 1.247e-08 Highly Informative Direct
Biological Process (BP) immune response-regulating signaling pathway 7.726e-08 Highly Informative Direct
Biological Process (BP) regulation of ligase activity 1.838e-07 Highly Informative Direct
Biological Process (BP) response to ionizing radiation 3.448e-07 Highly Informative Direct
Biological Process (BP) leukocyte activation involved in immune response 6.171e-07 Highly Informative Direct
Biological Process (BP) protein import 1.446e-06 Highly Informative Direct
Biological Process (BP) B cell activation 8.816e-06 Highly Informative Direct
Biological Process (BP) response to topologically incorrect protein 2.79e-05 Highly Informative Direct
Biological Process (BP) neural tube development 5.382e-05 Highly Informative Direct
Biological Process (BP) regulation of proteolysis 6.962e-05 Highly Informative Direct
Biological Process (BP) negative regulation of apoptotic signaling pathway 7.536e-05 Highly Informative Direct
Biological Process (BP) positive regulation of defense response 0.0001473 Highly Informative Direct
Biological Process (BP) response to fungus 0.0008792 Highly Informative Direct
Biological Process (BP) hormone-mediated signaling pathway 0.0009563 Highly Informative Direct
Biological Process (BP) negative regulation of endopeptidase activity 0.7631 Highly Informative Inherited
Biological Process (BP) positive regulation of peptidase activity 0.003253 Highly Informative Inherited
Biological Process (BP) regulation of mitochondrion organization 0.1656 Highly Informative Inherited
Biological Process (BP) cellular response to organic cyclic compound 0.3077 Highly Informative Inherited
Biological Process (BP) cell wall biogenesis 0.006131 Highly Informative Inherited
Biological Process (BP) cellular component macromolecule biosynthetic process 0.006998 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 0.1267 Highly Informative Inherited
Biological Process (BP) regulation of mitosis 0.04358 Highly Informative Inherited
Biological Process (BP) negative regulation of mitotic cell cycle phase transition 0.08351 Highly Informative Inherited
Biological Process (BP) negative regulation of cellular catabolic process 0.1534 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 0.06273 Highly Informative Inherited
Biological Process (BP) interaction with host 0.3827 Highly Informative Inherited
Biological Process (BP) negative regulation of protein modification process 0.3901 Highly Informative Inherited
Biological Process (BP) cell cycle phase 0.04365 Highly Informative Inherited
Biological Process (BP) microtubule cytoskeleton organization 0.4899 Highly Informative Inherited
Biological Process (BP) cellular polysaccharide biosynthetic process 0.01946 Highly Informative Inherited
Biological Process (BP) regulation of production of molecular mediator of immune response 0.3523 Highly Informative Inherited
Biological Process (BP) regulation of protein secretion 0.5693 Highly Informative Inherited
Biological Process (BP) negative regulation of locomotion 0.3411 Highly Informative Inherited
Biological Process (BP) regulation of vesicle-mediated transport 0.04473 Highly Informative Inherited
Biological Process (BP) regulation of DNA metabolic process 0.002153 Highly Informative Inherited
Biological Process (BP) regulation of cellular ketone metabolic process 0.08421 Highly Informative Inherited
Biological Process (BP) negative regulation of lipid biosynthetic process 0.001109 Highly Informative Inherited
Biological Process (BP) regulation of T cell activation 0.4012 Highly Informative Inherited
Biological Process (BP) negative regulation of immune system process 0.8834 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 1 Highly Informative Inherited
Biological Process (BP) regulation of leukocyte differentiation 0.8421 Highly Informative Inherited
Biological Process (BP) photoreceptor cell differentiation 0.5507 Highly Informative Inherited
Biological Process (BP) eye morphogenesis 0.9199 Highly Informative Inherited
Biological Process (BP) DNA modification 1 Highly Informative Inherited
Biological Process (BP) leukocyte homeostasis 0.2735 Highly Informative Inherited
Biological Process (BP) leukocyte mediated immunity 0.7022 Highly Informative Inherited
Biological Process (BP) innate immune response 0.001356 Highly Informative Inherited
Biological Process (BP) cellular membrane fusion 0.3448 Highly Informative Inherited
Biological Process (BP) regulation of protein complex assembly 0.3678 Highly Informative Inherited
Biological Process (BP) gene silencing 0.1422 Highly Informative Inherited
Biological Process (BP) positive regulation of organelle organization 0.2833 Highly Informative Inherited
Biological Process (BP) positive regulation of cell cycle process 0.1469 Highly Informative Inherited
Biological Process (BP) establishment of RNA localization 0.3121 Highly Informative Inherited
Biological Process (BP) nucleobase-containing compound transport 0.7589 Highly Informative Inherited
Biological Process (BP) positive regulation of cytokine production 0.1203 Highly Informative Inherited
Biological Process (BP) positive regulation of cellular catabolic process 0.01604 Highly Informative Inherited
Biological Process (BP) regulation of protein depolymerization 0.4253 Highly Informative Inherited
Biological Process (BP) ubiquitin-dependent protein catabolic process 1 Highly Informative Inherited
Biological Process (BP) nucleus organization 0.4953 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.2128 Highly Informative Inherited
Biological Process (BP) regulation of translation 0.1157 Highly Informative Inherited
Biological Process (BP) histone modification 0.9376 Highly Informative Inherited
Biological Process (BP) regulation of angiogenesis 0.02044 Highly Informative Inherited
Biological Process (BP) muscle organ development 0.2001 Highly Informative Inherited
Biological Process (BP) regulation of gene expression, epigenetic 0.02093 Highly Informative Inherited
Biological Process (BP) cellular hormone metabolic process 0.9862 Highly Informative Inherited
Biological Process (BP) intrinsic apoptotic signaling pathway 0.02207 Highly Informative Inherited
Biological Process (BP) epithelial cell development 0.005622 Highly Informative Inherited
Biological Process (BP) positive regulation of protein kinase activity 0.3199 Highly Informative Inherited
Biological Process (BP) protein phosphorylation 1 Highly Informative Inherited
Biological Process (BP) regulation of microtubule polymerization or depolymerization 0.3877 Highly Informative Inherited
Biological Process (BP) negative regulation of cytoskeleton organization 0.02525 Highly Informative Inherited
Biological Process (BP) negative regulation of protein complex disassembly 0.0499 Highly Informative Inherited
Biological Process (BP) secondary metabolite biosynthetic process 0.7552 Highly Informative Inherited
Biological Process (BP) pigment biosynthetic process 0.9847 Highly Informative Inherited
Biological Process (BP) lipoprotein metabolic process 1 Highly Informative Inherited
Biological Process (BP) protein deacylation 1 Highly Informative Inherited
Biological Process (BP) T cell differentiation 0.01329 Highly Informative Inherited
Biological Process (BP) alpha-beta T cell activation 0.08484 Highly Informative Inherited
Biological Process (BP) activation of immune response 0.003409 Highly Informative Inherited
Biological Process (BP) plasma membrane organization 0.3484 Highly Informative Inherited
Biological Process (BP) wound healing 1 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) cation binding 3.056e-08 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 1.545e-05 Informative Direct
Molecular Function (MF) enzyme binding 0.0005572 Informative Direct
Molecular Function (MF) carbohydrate derivative binding 0.5522 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 0.6499 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 0.6033 Informative Inherited
Molecular Function (MF) peptidase activity 0.04809 Informative Inherited
Molecular Function (MF) carboxylic acid binding 0.6894 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 0.0007709 Highly Informative Direct
Molecular Function (MF) structure-specific DNA binding 0.3148 Highly Informative Inherited
Molecular Function (MF) acetyltransferase activity 0.00283 Highly Informative Inherited
Molecular Function (MF) endopeptidase activity 0.2044 Highly Informative Inherited
Molecular Function (MF) transcription factor binding transcription factor activity 0.8192 Highly Informative Inherited
Molecular Function (MF) amino acid binding 0.1362 Highly Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 1.69e-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 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.03465 Least Informative Inherited
Cellular Component (CC) protein complex 0.2282 Least Informative Inherited
Cellular Component (CC) nuclear part 1.098e-08 Moderately Informative Direct
Cellular Component (CC) ribonucleoprotein complex 0.5036 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 0.05587 Moderately Informative Inherited
Cellular Component (CC) plasma membrane part 1 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.9968 Moderately Informative Inherited
Cellular Component (CC) ubiquitin ligase complex 0 Informative Direct
Cellular Component (CC) chromosome 3.001e-09 Informative Direct
Cellular Component (CC) endosome 0.0007775 Informative Direct
Cellular Component (CC) lytic vacuole 0.1914 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 0.001159 Informative Inherited
Cellular Component (CC) mitochondrial membrane part 1 Informative Inherited
Cellular Component (CC) vacuolar part 0.001676 Informative Inherited
Cellular Component (CC) contractile fiber part 0.1731 Informative Inherited
Cellular Component (CC) nuclear DNA-directed RNA polymerase complex 1 Informative Inherited
Cellular Component (CC) nucleoplasm part 0.2096 Informative Inherited
Cellular Component (CC) nuclear ubiquitin ligase complex 0 Highly Informative Direct
Cellular Component (CC) nuclear body 4.303e-13 Highly Informative Direct
Cellular Component (CC) cytoplasmic mRNA processing body 0 Highly Informative Direct
Cellular Component (CC) sarcolemma 2.318e-11 Highly Informative Direct
Cellular Component (CC) microbody membrane 4.296e-11 Highly Informative Direct
Cellular Component (CC) microbody part 2.093e-07 Highly Informative Direct
Cellular Component (CC) internal side of plasma membrane 7.252e-06 Highly Informative Direct
Cellular Component (CC) intrinsic to organelle membrane 6.074e-05 Highly Informative Direct
Cellular Component (CC) vacuolar membrane 0.0001043 Highly Informative Direct
Cellular Component (CC) lysosome 0.2587 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 0.0769 Highly Informative Inherited
Cellular Component (CC) myosin complex 0.6398 Highly Informative Inherited
Cellular Component (CC) mitochondrial outer membrane 0.006628 Highly Informative Inherited
Cellular Component (CC) condensed chromosome 0.6492 Highly Informative Inherited
Cellular Component (CC) myofilament 0.08311 Highly Informative Inherited
Cellular Component (CC) sarcomere 0.7159 Highly Informative Inherited
Cellular Component (CC) transcription factor complex 1 Highly Informative Inherited
Cellular Component (CC) chromatin 0.7622 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 muscle physiology0.4201Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the globe0.7698Moderately InformativeInherited
Phenotypic Abnormality (PA)Muscular hypotonia0.3268InformativeInherited
Phenotypic Abnormality (PA)Generalized neonatal hypotonia8.198e-06Highly InformativeDirect
Phenotypic Abnormality (PA)Brushfield spots0.0001525Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)cellular phenotype0.03506Least InformativeInherited
Mammalian Phenotype (MP)immune system phenotype0.7858Least InformativeInherited
Mammalian Phenotype (MP)abnormal immune serum protein physiology0.02256Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal chromosome stability0.0003662InformativeDirect
Mammalian Phenotype (MP)abnormal interleukin secretion0.6131InformativeInherited
Mammalian Phenotype (MP)chromosomal instability2.289e-05Highly InformativeDirect
Mammalian Phenotype (MP)abnormal interleukin-2 secretion0.04389Highly 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)gonad0.001876Least InformativeInherited
Xenopus ANatomical entity (XAN)genital system0.002298Least InformativeInherited
Xenopus ANatomical entity (XAN)ovary0.000605Moderately 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)Hydrolases2.614e-15Least InformativeDirect
Enzyme Commission (EC)Transferring phosphorous-containing groups1Least InformativeInherited
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0Moderately InformativeDirect
Enzyme Commission (EC)Glycosyltransferases9.522e-09Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases0.0001014Moderately InformativeDirect
Enzyme Commission (EC)Isomerases0.03334Moderately InformativeInherited
Enzyme Commission (EC)Protein-serine/threonine kinases0.08669Moderately InformativeInherited
Enzyme Commission (EC)Acting on carbon-nitrogen bonds, other than peptide bonds1Moderately InformativeInherited
Enzyme Commission (EC)Ligases1Moderately InformativeInherited
Enzyme Commission (EC)Hexosyltransferases0InformativeDirect
Enzyme Commission (EC)Omega peptidases0InformativeDirect
Enzyme Commission (EC)In linear amides0.1291InformativeInherited
Enzyme Commission (EC)Acid--amino-acid ligases (peptide synthases)0.2045InformativeInherited
Enzyme Commission (EC)Histone acetyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Peptidylprolyl isomerase8.392e-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 regulation8.891e-13Moderately InformativeDirect
Biological processHost-virus interaction8.762e-12Moderately InformativeDirect
Biological processCell cycle4.532e-10Moderately InformativeDirect
Biological processDNA damage4.645e-06Moderately InformativeDirect
Biological processDifferentiation0.000532Moderately InformativeDirect
Biological processMitosis0InformativeDirect
Biological processUbl conjugation pathway0InformativeDirect
Biological processEndocytosis2.384e-14InformativeDirect
Biological processWnt signaling pathway7.284e-14InformativeDirect
Biological processmRNA splicing6.831e-10InformativeDirect
Biological processPlant defense3.702e-06InformativeDirect
Biological processMeiosis1.203e-05InformativeDirect
Biological processViral immunoevasion0.03487InformativeInherited
Biological processAntiviral defense0Highly InformativeDirect
Biological processNotch signaling pathway0Highly InformativeDirect
Biological processAutophagy5.676e-11Highly InformativeDirect
Biological processVirus exit from host cell2.546e-06Highly InformativeDirect
Biological processModulation of host cell apoptosis by virus0.0001254Highly InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentCytoplasm1Least InformativeInherited
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
Cellular componentEndosome0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle4.116e-14Moderately InformativeDirect
Cellular componentGolgi apparatus3.476e-10Moderately InformativeDirect
Cellular componentCell junction1.177e-06Moderately InformativeDirect
Cellular componentMitochondrion1Moderately InformativeInherited
Cellular componentLysosome0InformativeDirect
Cellular componentPeroxisome0InformativeDirect
Cellular componentSpliceosome3.772e-13InformativeDirect
Cellular componentChromosome5.566e-12InformativeDirect
Cellular componentVacuole7.116e-08InformativeDirect
Cellular componentMitochondrion outer membrane1.463e-07InformativeDirect
Cellular componentSynapse1.324e-06InformativeDirect
Cellular componentHost cytoplasm1.743e-05InformativeDirect
Cellular componentLipid droplet1.279e-06Highly InformativeDirect
Cellular componentHost endosome0.0003734Highly InformativeDirect
Coding sequence diversityAlternative splicing1.781e-12Least InformativeDirect
Developmental stageEarly protein0.0001739Least InformativeDirect
DiseaseTumor suppressor8.191e-05Moderately InformativeDirect
DiseaseOsteopetrosis6.519e-08Highly InformativeDirect
DomainTransmembrane1Least InformativeInherited
DomainCoiled coil0Moderately InformativeDirect
DomainZinc-finger0Moderately InformativeDirect
DomainBromodomain8.677e-07Highly InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationLigase0Moderately InformativeDirect
Post-translational modificationRepressor0Moderately InformativeDirect
Post-translational modificationDevelopmental protein7.906e-10Moderately InformativeDirect
Post-translational modificationActivator1.115e-05Moderately InformativeDirect
Post-translational modificationProtease0.01329Moderately InformativeInherited
Post-translational modificationChromatin regulator0InformativeDirect
Post-translational modificationThiol protease0InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationAcetylation2.415e-14Least InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond7.529e-12Moderately 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 metabolism0.0003977Moderately InformativeDirect
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 ]