SUPERFAMILY 1.75 HMM library and genome assignments server


Ubiquitin-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   beta-Grasp (ubiquitin-like) [ 54235] (14)
Superfamily:   Ubiquitin-like [ 54236] (8)
Families:   Ubiquitin-related [ 54237] (38)
  UBX domain [ 54250] (5)
  GABARAP-like [ 54253] (3)
  First domain of FERM [ 54256] (6)
  Ras-binding domain, RBD [ 54263] (13)
  BM-002-like [ 75362] (3)
  APG12-like [ 142972]
  DIX domain [ 159926]


Superfamily statistics
Genomes (612) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 45,586 0 156
Proteins 38,336 0 155


Functional annotation
General category General
Detailed category General

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)protein metabolic process3.3e-150Least InformativeDirect
Biological Process (BP)cellular macromolecule metabolic process1.212e-080Least InformativeDirect
Biological Process (BP)response to stimulus0.19553.085e-05Least InformativeInherited
Biological Process (BP)regulation of cellular process0.14832.49e-05Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.018750.8035Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process11Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process11Least InformativeInherited
Biological Process (BP)nitrogen compound metabolic process11Least InformativeInherited
Biological Process (BP)localization0.28654.055e-05Least InformativeInherited
Biological Process (BP)multicellular organismal process0.65760.001201Least InformativeInherited
Biological Process (BP)single-organism cellular process0.54962.494e-11Least InformativeInherited
Biological Process (BP)response to endogenous stimulus0.57860.8446Moderately InformativeInherited
Biological Process (BP)response to organic substance0.48870.05715Moderately InformativeInherited
Biological Process (BP)regulation of localization0.45340.3326Moderately InformativeInherited
Biological Process (BP)regulation of multicellular organismal process0.65350.9932Moderately InformativeInherited
Biological Process (BP)phosphate-containing compound metabolic process0.97130.08842Moderately InformativeInherited
Biological Process (BP)positive regulation of metabolic process0.0026211Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.04331Moderately InformativeInherited
Biological Process (BP)regulation of protein metabolic process0.021930Moderately InformativeInherited
Biological Process (BP)cellular protein modification process4.095e-070.1476Moderately InformativeInherited
Biological Process (BP)ion transport0.67111Moderately InformativeInherited
Biological Process (BP)organic substance transport0.46081Moderately InformativeInherited
Biological Process (BP)macromolecule localization0.0010784.16e-11Moderately InformativeInherited
Biological Process (BP)cellular catabolic process0.026883.812e-12Moderately InformativeInherited
Biological Process (BP)organic hydroxy compound metabolic process0.72481Moderately InformativeInherited
Biological Process (BP)system process0.70360.424Moderately InformativeInherited
Biological Process (BP)protein modification by small protein conjugation or removal00InformativeDirect
Biological Process (BP)regulation of cellular catabolic process0.006310InformativeInherited
Biological Process (BP)positive regulation of protein modification process0.29460.3217InformativeInherited
Biological Process (BP)nitrogen compound transport0.34581InformativeInherited
Biological Process (BP)regulation of system process0.09870.4726InformativeInherited
Biological Process (BP)regulation of secretion0.00067080.1467InformativeInherited
Biological Process (BP)dephosphorylation0.099530.2598InformativeInherited
Biological Process (BP)transmission of nerve impulse0.10050.5981InformativeInherited
Biological Process (BP)cell-cell signaling0.29730.7798InformativeInherited
Biological Process (BP)autophagy02.099e-14Highly InformativeDirect
Biological Process (BP)monoamine transport6.913e-051.1e-05Highly InformativeDirect
Biological Process (BP)regulation of proteolysis3.146e-050Highly InformativeDirect
Biological Process (BP)regulation of protein ubiquitination7.049e-080Highly InformativeDirect
Biological Process (BP)regulation of protein catabolic process0.00034340Highly InformativeDirect
Biological Process (BP)organic hydroxy compound transport0.0031710.02105Highly InformativeInherited
Biological Process (BP)regulation of synaptic transmission0.0025772.892e-06Highly InformativeInherited
Biological Process (BP)protein dephosphorylation0.38620.1625Highly InformativeInherited
Biological Process (BP)phenol-containing compound metabolic process0.0018680.05629Highly InformativeInherited
Biological Process (BP)neuromuscular process0.00023980.09775Highly InformativeInherited
Biological Process (BP)regulation of neurotransmitter levels0.0023040.4553Highly InformativeInherited
Biological Process (BP)neurotransmitter transport0.0019990.02224Highly InformativeInherited
Molecular Function (MF)binding0.0077140Least InformativeInherited
Molecular Function (MF)hydrolase activity11Least InformativeInherited
Molecular Function (MF)hydrolase activity, acting on ester bonds0.65440.8002Moderately InformativeInherited
Molecular Function (MF)ligase activity, forming carbon-nitrogen bonds4.515e-153.324e-09InformativeDirect
Molecular Function (MF)enzyme binding0.029982.615e-09InformativeInherited
Molecular Function (MF)phosphoric ester hydrolase activity0.15080.092InformativeInherited
Molecular Function (MF)phosphoprotein phosphatase activity0.00080581.178e-05Highly InformativeDirect
Molecular Function (MF)small conjugating protein ligase activity1.85e-146.498e-11Highly InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.0028751Least InformativeInherited
Cellular Component (CC)intracellular organelle part0.13851Least InformativeInherited
Cellular Component (CC)cytoplasmic part10.3988Least InformativeInherited
Cellular Component (CC)nuclear part0.017420.3635Moderately InformativeInherited
Cellular Component (CC)intracellular organelle lumen4.347e-050.5553Moderately InformativeInherited
Cellular Component (CC)nucleoplasm part0.0023231InformativeInherited
Cellular Component (CC)nuclear body5.391e-070.0003083Highly 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) protein metabolic process 0 Least Informative Direct
Biological Process (BP) developmental process 7.273e-06 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) single-organism cellular process 2.494e-11 Least Informative Direct
Biological Process (BP) regulation of cellular process 2.49e-05 Least Informative Direct
Biological Process (BP) response to stimulus 3.085e-05 Least Informative Direct
Biological Process (BP) localization 4.055e-05 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.8035 Least Informative Inherited
Biological Process (BP) heterocycle 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) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 0.001201 Least Informative Inherited
Biological Process (BP) organelle organization 3.882e-08 Moderately Informative Direct
Biological Process (BP) signal transduction 3.326e-07 Moderately Informative Direct
Biological Process (BP) nervous system development 1.955e-05 Moderately Informative Direct
Biological Process (BP) regulation of signal transduction 0 Moderately Informative Direct
Biological Process (BP) regulation of phosphate metabolic process 0 Moderately Informative Direct
Biological Process (BP) macromolecule localization 4.16e-11 Moderately Informative Direct
Biological Process (BP) positive regulation of molecular function 1.852e-06 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 3.812e-12 Moderately Informative Direct
Biological Process (BP) regulation of catalytic activity 3.722e-15 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 0.0003065 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular localization 6.8e-05 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 9.657e-05 Moderately Informative Direct
Biological Process (BP) negative regulation of metabolic process 0.8607 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.3326 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.1476 Moderately Informative Inherited
Biological Process (BP) organ development 1 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.05715 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.8446 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.1213 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.001076 Moderately Informative Inherited
Biological Process (BP) system process 0.424 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.9788 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.006752 Moderately Informative Inherited
Biological Process (BP) regulation of biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) immune system process 0.5212 Moderately Informative Inherited
Biological Process (BP) positive regulation of response to stimulus 0.03706 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) monocarboxylic acid metabolic process 1 Moderately Informative Inherited
Biological Process (BP) single-organism biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) ion transport 1 Moderately Informative Inherited
Biological Process (BP) organic substance transport 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.9932 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.01336 Moderately Informative Inherited
Biological Process (BP) reproduction 0.1131 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.0936 Moderately Informative Inherited
Biological Process (BP) phosphate-containing compound metabolic process 0.08842 Moderately Informative Inherited
Biological Process (BP) lipid biosynthetic process 0.002742 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.8668 Moderately Informative Inherited
Biological Process (BP) cellular lipid metabolic process 0.354 Moderately Informative Inherited
Biological Process (BP) organic hydroxy compound metabolic process 1 Moderately Informative Inherited
Biological Process (BP) homeostatic process 1 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.4764 Moderately Informative Inherited
Biological Process (BP) tissue development 0.2086 Moderately Informative Inherited
Biological Process (BP) proteolysis 6.663e-10 Informative Direct
Biological Process (BP) phospholipid metabolic process 5.132e-08 Informative Direct
Biological Process (BP) cytoskeleton organization 1.283e-10 Informative Direct
Biological Process (BP) regulation of nucleoside metabolic process 0 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0.0002538 Informative Direct
Biological Process (BP) cellular membrane organization 0.0002402 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 4.843e-08 Informative Direct
Biological Process (BP) actin filament-based process 2.104e-10 Informative Direct
Biological Process (BP) protein catabolic process 0 Informative Direct
Biological Process (BP) regulation of cellular catabolic process 0 Informative Direct
Biological Process (BP) intracellular signal transduction 1.978e-06 Informative Direct
Biological Process (BP) locomotion 0.0005415 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 0.0001402 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 0 Informative Direct
Biological Process (BP) glycerolipid metabolic process 2.024e-11 Informative Direct
Biological Process (BP) embryonic morphogenesis 1.717e-05 Informative Direct
Biological Process (BP) tissue morphogenesis 0.0001648 Informative Direct
Biological Process (BP) negative regulation of protein metabolic process 4.949e-06 Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 0.0001139 Informative Direct
Biological Process (BP) protein modification by small protein conjugation or removal 0 Informative Direct
Biological Process (BP) regulation of purine nucleotide metabolic process 0 Informative Direct
Biological Process (BP) regulation of locomotion 0.1033 Informative Inherited
Biological Process (BP) regulation of cellular component movement 0.324 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.009261 Informative Inherited
Biological Process (BP) generation of neurons 0.7887 Informative Inherited
Biological Process (BP) regulation of cell development 0.08466 Informative Inherited
Biological Process (BP) positive regulation of developmental process 0.5449 Informative Inherited
Biological Process (BP) regulation of apoptotic process 0.001395 Informative Inherited
Biological Process (BP) regulation of protein phosphorylation 1 Informative Inherited
Biological Process (BP) regulation of kinase activity 0.0336 Informative Inherited
Biological Process (BP) positive regulation of protein modification process 0.3217 Informative Inherited
Biological Process (BP) positive regulation of phosphate metabolic process 0.846 Informative Inherited
Biological Process (BP) negative regulation of cell death 0.005695 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.5549 Informative Inherited
Biological Process (BP) embryonic organ development 0.7508 Informative Inherited
Biological Process (BP) cell projection organization 0.0088 Informative Inherited
Biological Process (BP) programmed cell death 1 Informative Inherited
Biological Process (BP) cellular response to nitrogen compound 0.6234 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 1 Informative Inherited
Biological Process (BP) response to organonitrogen compound 0.2178 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.8499 Informative Inherited
Biological Process (BP) cellular response to endogenous stimulus 0.2404 Informative Inherited
Biological Process (BP) regulation of cell cycle process 0.6586 Informative Inherited
Biological Process (BP) chromosome organization 1 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.7966 Informative Inherited
Biological Process (BP) phosphorylation 0.001659 Informative Inherited
Biological Process (BP) enzyme linked receptor protein signaling pathway 0.02971 Informative Inherited
Biological Process (BP) regulation of system process 0.4726 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.8093 Informative Inherited
Biological Process (BP) negative regulation of developmental process 0.09931 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.5734 Informative Inherited
Biological Process (BP) cell-cell signaling 0.7798 Informative Inherited
Biological Process (BP) transmission of nerve impulse 0.5981 Informative Inherited
Biological Process (BP) nitrogen compound transport 1 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.9726 Informative Inherited
Biological Process (BP) positive regulation of cellular component organization 0.4355 Informative Inherited
Biological Process (BP) cell cycle process 0.564 Informative Inherited
Biological Process (BP) organelle localization 1 Informative Inherited
Biological Process (BP) microtubule-based process 0.003254 Informative Inherited
Biological Process (BP) protein complex assembly 1 Informative Inherited
Biological Process (BP) cellular macromolecular complex assembly 0.5217 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.06824 Informative Inherited
Biological Process (BP) cellular component movement 0.0671 Informative Inherited
Biological Process (BP) localization of cell 0.01027 Informative Inherited
Biological Process (BP) regulation of secretion 0.1467 Informative Inherited
Biological Process (BP) regulation of intracellular protein kinase cascade 0.04629 Informative Inherited
Biological Process (BP) regulation of anatomical structure size 1 Informative Inherited
Biological Process (BP) protein localization to organelle 0.1594 Informative Inherited
Biological Process (BP) organ morphogenesis 0.04801 Informative Inherited
Biological Process (BP) leukocyte activation 0.008941 Informative Inherited
Biological Process (BP) regulation of intracellular transport 0.2509 Informative Inherited
Biological Process (BP) regulation of establishment of protein localization 1 Informative Inherited
Biological Process (BP) dephosphorylation 0.2598 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 1 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 1 Informative Inherited
Biological Process (BP) regulation of response to stress 1 Informative Inherited
Biological Process (BP) regulation of immune response 1 Informative Inherited
Biological Process (BP) positive regulation of immune system process 1 Informative Inherited
Biological Process (BP) regulation of cytokine production 1 Informative Inherited
Biological Process (BP) vesicle-mediated transport 0.08135 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.4124 Informative Inherited
Biological Process (BP) fatty acid metabolic process 1 Informative Inherited
Biological Process (BP) monocarboxylic acid biosynthetic process 1 Informative Inherited
Biological Process (BP) negative regulation of cell communication 0.0204 Informative Inherited
Biological Process (BP) negative regulation of signaling 0.005852 Informative Inherited
Biological Process (BP) negative regulation of response to stimulus 0.01905 Informative Inherited
Biological Process (BP) central nervous system development 0.2293 Informative Inherited
Biological Process (BP) sensory organ development 0.0128 Informative Inherited
Biological Process (BP) mitotic cell cycle 0.8314 Informative Inherited
Biological Process (BP) DNA metabolic process 1 Informative Inherited
Biological Process (BP) regulation of growth 0.929 Informative Inherited
Biological Process (BP) regulation of body fluid levels 0.2268 Informative Inherited
Biological Process (BP) response to wounding 1 Informative Inherited
Biological Process (BP) growth 0.6537 Informative Inherited
Biological Process (BP) embryo development ending in birth or egg hatching 0.8906 Informative Inherited
Biological Process (BP) epithelium development 0.028 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.5993 Informative Inherited
Biological Process (BP) response to nutrient levels 0.00567 Informative Inherited
Biological Process (BP) organelle assembly 0.636 Informative Inherited
Biological Process (BP) leukocyte homeostasis 3.532e-06 Highly Informative Direct
Biological Process (BP) autophagy 2.099e-14 Highly Informative Direct
Biological Process (BP) establishment or maintenance of cell polarity 1.922e-15 Highly Informative Direct
Biological Process (BP) small GTPase mediated signal transduction 5.732e-06 Highly Informative Direct
Biological Process (BP) hemostasis 0.0004354 Highly Informative Direct
Biological Process (BP) response to purine-containing compound 5.169e-06 Highly Informative Direct
Biological Process (BP) monoamine transport 1.1e-05 Highly Informative Direct
Biological Process (BP) morphogenesis of embryonic epithelium 0.0009502 Highly Informative Direct
Biological Process (BP) regulation of proteolysis 0 Highly Informative Direct
Biological Process (BP) lipid modification 0.0009264 Highly Informative Direct
Biological Process (BP) stress-activated protein kinase signaling cascade 0.0003439 Highly Informative Direct
Biological Process (BP) negative regulation of cellular catabolic process 1.802e-06 Highly Informative Direct
Biological Process (BP) regulation of protein ubiquitination 0 Highly Informative Direct
Biological Process (BP) regulation of protein stability 9.459e-08 Highly Informative Direct
Biological Process (BP) cell junction organization 1.311e-05 Highly Informative Direct
Biological Process (BP) response to endoplasmic reticulum stress 8.416e-06 Highly Informative Direct
Biological Process (BP) response to topologically incorrect protein 2.728e-05 Highly Informative Direct
Biological Process (BP) B cell activation 0.0001021 Highly Informative Direct
Biological Process (BP) regulation of protein catabolic process 0 Highly Informative Direct
Biological Process (BP) glycerophospholipid biosynthetic process 4.371e-07 Highly Informative Direct
Biological Process (BP) phosphatidylinositol metabolic process 0 Highly Informative Direct
Biological Process (BP) regulation of synaptic transmission 2.892e-06 Highly Informative Direct
Biological Process (BP) leukocyte migration 0.0006119 Highly Informative Direct
Biological Process (BP) maintenance of location 0.0003266 Highly Informative Direct
Biological Process (BP) protein polymerization 0.0001626 Highly Informative Direct
Biological Process (BP) cellular response to growth factor stimulus 0.0005881 Highly Informative Direct
Biological Process (BP) regulation of protein localization to nucleus 0.0002589 Highly Informative Direct
Biological Process (BP) positive regulation of cell migration 0.07337 Highly Informative Inherited
Biological Process (BP) positive regulation of cell differentiation 0.4521 Highly Informative Inherited
Biological Process (BP) positive regulation of programmed cell death 0.7404 Highly Informative Inherited
Biological Process (BP) positive regulation of protein kinase activity 0.002317 Highly Informative Inherited
Biological Process (BP) negative regulation of apoptotic process 0.1494 Highly Informative Inherited
Biological Process (BP) protein ubiquitination 1 Highly Informative Inherited
Biological Process (BP) organic hydroxy compound transport 0.02105 Highly Informative Inherited
Biological Process (BP) regulation of organ morphogenesis 0.03302 Highly Informative Inherited
Biological Process (BP) inner ear development 0.3086 Highly Informative Inherited
Biological Process (BP) embryonic organ morphogenesis 0.8381 Highly Informative Inherited
Biological Process (BP) cell projection morphogenesis 1 Highly Informative Inherited
Biological Process (BP) intrinsic apoptotic signaling pathway 0.3729 Highly Informative Inherited
Biological Process (BP) G-protein coupled receptor signaling pathway 1 Highly Informative Inherited
Biological Process (BP) meiosis 0.122 Highly Informative Inherited
Biological Process (BP) epithelial cell development 0.01595 Highly Informative Inherited
Biological Process (BP) protein phosphorylation 1 Highly Informative Inherited
Biological Process (BP) regulation of actin cytoskeleton organization 0.1118 Highly Informative Inherited
Biological Process (BP) positive regulation of organelle organization 0.1845 Highly Informative Inherited
Biological Process (BP) microtubule cytoskeleton organization 0.3765 Highly Informative Inherited
Biological Process (BP) regulation of binding 0.008832 Highly Informative Inherited
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 1 Highly Informative Inherited
Biological Process (BP) regulation of neuron projection development 0.3522 Highly Informative Inherited
Biological Process (BP) negative regulation of cell differentiation 0.1375 Highly Informative Inherited
Biological Process (BP) chemotaxis 0.004671 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to stress 0.00391 Highly Informative Inherited
Biological Process (BP) regulation of cell size 0.2926 Highly Informative Inherited
Biological Process (BP) regulation of intracellular protein transport 0.004936 Highly Informative Inherited
Biological Process (BP) regulation of nucleocytoplasmic transport 0.00495 Highly Informative Inherited
Biological Process (BP) protein dephosphorylation 0.1625 Highly Informative Inherited
Biological Process (BP) activation of immune response 0.3111 Highly Informative Inherited
Biological Process (BP) immune response-regulating signaling pathway 1 Highly Informative Inherited
Biological Process (BP) positive regulation of defense response 0.9902 Highly Informative Inherited
Biological Process (BP) regulation of innate immune response 0.9336 Highly Informative Inherited
Biological Process (BP) positive regulation of Ras GTPase activity 0.002053 Highly Informative Inherited
Biological Process (BP) negative regulation of multicellular organismal process 0.4643 Highly Informative Inherited
Biological Process (BP) transmembrane receptor protein tyrosine kinase signaling pathway 0.009556 Highly Informative Inherited
Biological Process (BP) regulation of cellular response to growth factor stimulus 0.004353 Highly Informative Inherited
Biological Process (BP) ubiquitin-dependent protein catabolic process 1 Highly Informative Inherited
Biological Process (BP) proteasomal protein catabolic process 1 Highly Informative Inherited
Biological Process (BP) cell projection assembly 0.01397 Highly Informative Inherited
Biological Process (BP) eye morphogenesis 0.0528 Highly Informative Inherited
Biological Process (BP) regulation of cell adhesion 0.1341 Highly Informative Inherited
Biological Process (BP) DNA modification 0.6637 Highly Informative Inherited
Biological Process (BP) regulation of gene expression, epigenetic 0.6284 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.04989 Highly Informative Inherited
Biological Process (BP) phenol-containing compound metabolic process 0.05629 Highly Informative Inherited
Biological Process (BP) regulation of striated muscle tissue development 0.07709 Highly Informative Inherited
Biological Process (BP) regulation of developmental growth 0.6905 Highly Informative Inherited
Biological Process (BP) wound healing 0.04526 Highly Informative Inherited
Biological Process (BP) coagulation 0.003114 Highly Informative Inherited
Biological Process (BP) cell growth 0.1575 Highly Informative Inherited
Biological Process (BP) developmental growth 0.3315 Highly Informative Inherited
Biological Process (BP) MAPK cascade 0.04876 Highly Informative Inherited
Biological Process (BP) protein folding 0.7795 Highly Informative Inherited
Biological Process (BP) neuromuscular process 0.09775 Highly Informative Inherited
Biological Process (BP) regulation of neurotransmitter levels 0.4553 Highly Informative Inherited
Biological Process (BP) neurotransmitter transport 0.02224 Highly Informative Inherited
Biological Process (BP) cellular response to starvation 0.2609 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 5.145e-05 Moderately Informative Direct
Molecular Function (MF) enzyme regulator activity 9.709e-15 Moderately Informative Direct
Molecular Function (MF) nucleic acid binding 1 Moderately Informative Inherited
Molecular Function (MF) anion binding 0.4814 Moderately Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.8002 Moderately Informative Inherited
Molecular Function (MF) cytoskeletal protein binding 2.507e-07 Informative Direct
Molecular Function (MF) ligase activity, forming carbon-nitrogen bonds 3.324e-09 Informative Direct
Molecular Function (MF) enzyme binding 2.615e-09 Informative Direct
Molecular Function (MF) GTPase regulator activity 0 Informative Direct
Molecular Function (MF) kinase activity 0.1076 Informative Inherited
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 0.01631 Informative Inherited
Molecular Function (MF) DNA binding 1 Informative Inherited
Molecular Function (MF) receptor binding 1 Informative Inherited
Molecular Function (MF) nucleotide binding 0.9563 Informative Inherited
Molecular Function (MF) peptidase activity 0.125 Informative Inherited
Molecular Function (MF) lipid binding 0.5345 Informative Inherited
Molecular Function (MF) phosphoric ester hydrolase activity 0.092 Informative Inherited
Molecular Function (MF) nucleoside-triphosphatase activity 1 Informative Inherited
Molecular Function (MF) RNA binding 1 Informative Inherited
Molecular Function (MF) nucleotidyltransferase activity 0.878 Informative Inherited
Molecular Function (MF) phosphoprotein phosphatase activity 1.178e-05 Highly Informative Direct
Molecular Function (MF) small GTPase regulator activity 0.0001727 Highly Informative Direct
Molecular Function (MF) guanyl-nucleotide exchange factor activity 0.0004438 Highly Informative Direct
Molecular Function (MF) small conjugating protein ligase activity 6.498e-11 Highly Informative Direct
Molecular Function (MF) protein domain specific binding 8.104e-12 Highly Informative Direct
Molecular Function (MF) protein complex binding 2.744e-06 Highly Informative Direct
Molecular Function (MF) structure-specific DNA binding 0.108 Highly Informative Inherited
Molecular Function (MF) ribonucleoprotein complex binding 0.001988 Highly Informative Inherited
Molecular Function (MF) protein kinase activity 1 Highly Informative Inherited
Molecular Function (MF) thiolester hydrolase activity 0.01913 Highly Informative Inherited
Molecular Function (MF) adenylyltransferase activity 0.00182 Highly Informative Inherited
Cellular Component (CC) intracellular non-membrane-bounded organelle 7.07e-07 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.3988 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) membrane 0.001868 Least Informative Inherited
Cellular Component (CC) protein complex 0.009896 Least Informative Inherited
Cellular Component (CC) cytosol 0 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 3.992e-05 Moderately Informative Direct
Cellular Component (CC) cell projection 0 Moderately Informative Direct
Cellular Component (CC) organelle membrane 0.2713 Moderately Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.5553 Moderately Informative Inherited
Cellular Component (CC) plasma membrane 0.2844 Moderately Informative Inherited
Cellular Component (CC) endomembrane system 0.009967 Moderately Informative Inherited
Cellular Component (CC) endoplasmic reticulum 0.7805 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.3635 Moderately Informative Inherited
Cellular Component (CC) ribonucleoprotein complex 1 Moderately Informative Inherited
Cellular Component (CC) ubiquitin ligase complex 0.0003695 Informative Direct
Cellular Component (CC) endoplasmic reticulum membrane 0.0003092 Informative Direct
Cellular Component (CC) cell cortex 5.138e-14 Informative Direct
Cellular Component (CC) actin cytoskeleton 0.000472 Informative Direct
Cellular Component (CC) cell leading edge 0 Informative Direct
Cellular Component (CC) neuron projection 1 Informative Inherited
Cellular Component (CC) synapse part 0.03012 Informative Inherited
Cellular Component (CC) nucleoplasm part 1 Informative Inherited
Cellular Component (CC) cell-cell junction 1 Informative Inherited
Cellular Component (CC) chromosome 1 Informative Inherited
Cellular Component (CC) ruffle 1.661e-08 Highly Informative Direct
Cellular Component (CC) microvillus 8.648e-08 Highly Informative Direct
Cellular Component (CC) adherens junction 0 Highly Informative Direct
Cellular Component (CC) internal side of plasma membrane 0.0001705 Highly Informative Direct
Cellular Component (CC) basolateral plasma membrane 0.0006877 Highly Informative Direct
Cellular Component (CC) nuclear body 0.0003083 Highly Informative Direct
Cellular Component (CC) cell-substrate junction 2.718e-05 Highly Informative Direct
Cellular Component (CC) apical junction complex 0.0006444 Highly Informative Direct
Cellular Component (CC) perinuclear region of cytoplasm 0.0008908 Highly Informative Direct
Cellular Component (CC) spliceosomal complex 0.306 Highly Informative Inherited
Cellular Component (CC) chromatin 0.643 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)5.609e-14Least InformativeDirect
Enzyme Commission (EC)Acting on ester bonds0.0102Least InformativeInherited
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Omega peptidases0Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases4.359e-12Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases4.443e-10Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as accep3.067e-05Moderately InformativeDirect
Enzyme Commission (EC)Acting on the CH-CH group of donors0.00289Moderately InformativeInherited
Enzyme Commission (EC)Non-specific protein-tyrosine kinase1.949e-13InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase3.66e-06InformativeDirect
Enzyme Commission (EC)Phosphatidylinositol-4-phosphate 3-kinase0Highly InformativeDirect
Enzyme Commission (EC)Phosphatidylinositol-4,5-bisphosphate 3-kinase0Highly InformativeDirect
Enzyme Commission (EC)Phosphatidylinositol 3-kinase6.12e-10Highly InformativeDirect

Document: EC annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Neoplasm0.02003Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormal respiratory system morphology0.6964Moderately InformativeInherited
Phenotypic Abnormality (PA)Neoplasm by anatomical site0.8855InformativeInherited
Phenotypic Abnormality (PA)Alveolar cell carcinoma0.0001697Highly InformativeDirect

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)abnormal tumor incidence0.1928Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal embryogenesis/ development1Moderately InformativeInherited
Mammalian Phenotype (MP)increased hamartoma incidence0.0005252Highly InformativeDirect

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 variant0.006354Least InformativeInherited
Worm Phenotype (WP)protein aggregation variant1.573e-05Moderately InformativeDirect
Worm Phenotype (WP)protein aggregation induced paralysis0.05939InformativeInherited

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details) Document: YP annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details)
ZA termFDR (all)SDZA levelAnnotation (direct or inherited)
Zebrafish Anatomy (ZA)cell0.2601Least InformativeInherited
Zebrafish Anatomy (ZA)nervous system0.9092Least InformativeInherited
Zebrafish Anatomy (ZA)electrically signaling cell0.02208Moderately InformativeInherited
Zebrafish Anatomy (ZA)electrically responsive cell1Moderately InformativeInherited
Zebrafish Anatomy (ZA)receptor cell (sensu Animalia)0.0006919InformativeDirect

Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)head0.0003728Least InformativeDirect
Xenopus ANatomical entity (XAN)central nervous system0.001347Least InformativeInherited
Xenopus ANatomical entity (XAN)viscus0.2241Least InformativeInherited
Xenopus ANatomical entity (XAN)immune system0.009168Moderately InformativeInherited
Xenopus ANatomical entity (XAN)spleen0.0001292InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)
AP termFDR (all)SDAP levelAnnotation (direct or inherited)
Plant ANatomical entity (PAN)pollen tube cell1.031e-06InformativeDirect
Plant ANatomical entity (PAN)gamete0.0003164InformativeDirect
Plant structure DEvelopment stage (PDE)pollen development stage4.841e-06Moderately InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring phosphorous-containing groups0Least InformativeDirect
Enzyme Commission (EC)Hydrolases4.552e-12Least InformativeDirect
Enzyme Commission (EC)Oxidoreductases1Least InformativeInherited
Enzyme Commission (EC)Acting on peptide bonds (peptide hydrolases)0Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases1.278e-10Moderately InformativeDirect
Enzyme Commission (EC)Phosphoric monoester hydrolases6.803e-10Moderately InformativeDirect
Enzyme Commission (EC)Phosphotransferases with an alcohol group as acceptor2.112e-06Moderately InformativeDirect
Enzyme Commission (EC)Omega peptidases0InformativeDirect
Enzyme Commission (EC)Protein-tyrosine-phosphatase2.933e-06InformativeDirect
Enzyme Commission (EC)Protein-tyrosine kinases6.098e-06InformativeDirect
Enzyme Commission (EC)With NAD(+) or NADP(+) as acceptor1.529e-05InformativeDirect
Enzyme Commission (EC)Phosphoric diester hydrolases0.06021InformativeInherited
Enzyme Commission (EC)Phosphatidylinositol-4-phosphate 3-kinase0Highly InformativeDirect
Enzyme Commission (EC)Non-specific protein-tyrosine kinase4.158e-13Highly InformativeDirect
Enzyme Commission (EC)Phosphoinositide phospholipase C4.171e-07Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport8.818e-07Least InformativeDirect
Biological processApoptosis0Moderately InformativeDirect
Biological processProtein transport0Moderately InformativeDirect
Biological processUbl conjugation pathway0InformativeDirect
Biological processWnt signaling pathway0InformativeDirect
Biological processAngiogenesis2.365e-16InformativeDirect
Biological processEndocytosis8.511e-08InformativeDirect
Biological processNeurogenesis0.000224InformativeDirect
Biological processmRNA splicing0.000866InformativeDirect
Biological processAutophagy0Highly InformativeDirect
Biological processUnfolded protein response0Highly InformativeDirect
Biological processmRNA transport1.722e-13Highly InformativeDirect
Biological processCilium biogenesis/degradation1.631e-07Highly InformativeDirect
Biological processExocytosis1.006e-05Highly InformativeDirect
Biological processAntiviral defense2.84e-05Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentMembrane3.801e-15Least InformativeDirect
Cellular componentCytoskeleton0Moderately InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
Cellular componentCell junction0Moderately InformativeDirect
Cellular componentCell projection0Moderately InformativeDirect
Cellular componentCytoplasmic vesicle0Moderately InformativeDirect
Cellular componentGolgi apparatus3.274e-06Moderately InformativeDirect
Cellular componentEndosome0.000341Moderately InformativeDirect
Cellular componentMicrotubule0InformativeDirect
Cellular componentVacuole0InformativeDirect
Cellular componentProteasome1.922e-09Highly InformativeDirect
Cellular componentLipid droplet2.597e-09Highly InformativeDirect
Coding sequence diversityAlternative splicing8.995e-05Least InformativeDirect
DiseaseTumor suppressor5.968e-09Moderately InformativeDirect
DiseaseProto-oncogene6.425e-06Moderately InformativeDirect
DomainRepeat0Least InformativeDirect
DomainCoiled coil0Moderately InformativeDirect
DomainZinc-finger0Moderately InformativeDirect
DomainSH2 domain5.899e-10InformativeDirect
DomainSH3 domain4.708e-05InformativeDirect
Molecular functionNucleotide-binding1Least InformativeInherited
Molecular functionActin-binding0InformativeDirect
Molecular functionCalmodulin-binding9.335e-08InformativeDirect
Molecular functionLipid-binding7.408e-06InformativeDirect
Molecular functioncAMP-binding2.664e-06Highly InformativeDirect
Molecular functioncAMP0.000106Highly InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationTransferase1Least InformativeInherited
Post-translational modificationDevelopmental protein0Moderately InformativeDirect
Post-translational modificationProtease0.002369Moderately InformativeInherited
Post-translational modificationKinase0.04415Moderately InformativeInherited
Post-translational modificationGTPase activation0InformativeDirect
Post-translational modificationGuanine-nucleotide releasing factor0InformativeDirect
Post-translational modificationThiol protease0InformativeDirect
Post-translational modificationProtein phosphatase2.608e-12InformativeDirect
Post-translational modificationChromatin regulator4.08e-07InformativeDirect
Post-translational modificationSerine/threonine-protein kinase2.191e-05InformativeDirect
Post-translational modificationMyosin0Highly InformativeDirect
Post-translational modificationActin capping6.349e-06Highly InformativeDirect
Post-translational modificationSignal transduction inhibitor8.988e-06Highly InformativeDirect
Post-translational modificationTyrosine-protein kinase0.0007063Highly InformativeDirect
Post-translational modificationPhosphoprotein6.592e-13Least InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond0Moderately InformativeDirect

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)lipid metabolism0.03007Least InformativeInherited
UniPathway (UP)protein ubiquitination0Moderately InformativeDirect
UniPathway (UP)phospholipid metabolism2.467e-10InformativeDirect
UniPathway (UP)phosphatidylinositol phosphate biosynthesis0Highly InformativeDirect
UniPathway (UP)protein degradation3.003e-06Highly InformativeDirect

Document: UP annotation of SCOP domains

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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 79 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 Ubiquitin-like 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 79 hidden Markov models representing the Ubiquitin-like 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) · Yeast Phenotype (YP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]