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UBC-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   UBC-like [ 54494]
Superfamily:   UBC-like [ 54495] (4)
Families:   UBC-related [ 54496] (6)
  UEV domain [ 75383] (2)
  RWD domain [ 110843] (4)
  UFC1-like [ 143072]


Superfamily statistics
Genomes (543) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 20,992 47,637 68
Proteins 20,642 46,808 68


Functional annotation
General category Processes_IC
Detailed category Protein modification

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)macromolecule metabolic process00Least InformativeDirect
Biological Process (BP)primary metabolic process00Least InformativeDirect
Biological Process (BP)organonitrogen compound metabolic process00Least InformativeDirect
Biological Process (BP)single-organism metabolic process11Least InformativeInherited
Biological Process (BP)biological regulation0.2811Least InformativeInherited
Biological Process (BP)cellular component organization or biogenesis0.06610.1157Least InformativeInherited
Biological Process (BP)single-organism cellular process11Least InformativeInherited
Biological Process (BP)response to stimulus0.054891Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process11Least InformativeInherited
Biological Process (BP)heterocycle metabolic process11Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process11Least InformativeInherited
Biological Process (BP)cellular nitrogen compound metabolic process11Least InformativeInherited
Biological Process (BP)cellular response to stress0.0000000000000016250Moderately InformativeDirect
Biological Process (BP)cellular catabolic process0.00000011330Moderately InformativeDirect
Biological Process (BP)organic substance catabolic process0.000021290Moderately InformativeDirect
Biological Process (BP)positive regulation of metabolic process0.029520.03012Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process0.28930.1066Moderately InformativeInherited
Biological Process (BP)organelle organization0.0095970.001161Moderately InformativeInherited
Biological Process (BP)tissue development0.26741Moderately InformativeInherited
Biological Process (BP)regulation of response to stimulus0.27420.07823Moderately InformativeInherited
Biological Process (BP)cellular component assembly11Moderately InformativeInherited
Biological Process (BP)protein complex biogenesis0.17740.009259Moderately InformativeInherited
Biological Process (BP)response to organic substance0.0042840.01354Moderately InformativeInherited
Biological Process (BP)single-organism catabolic process0.95911Moderately InformativeInherited
Biological Process (BP)cellular response to chemical stimulus10.756Moderately InformativeInherited
Biological Process (BP)cellular protein modification process0.000040920.03705Moderately InformativeInherited
Biological Process (BP)regulation of protein metabolic process0.10410.00000000107Moderately InformativeInherited
Biological Process (BP)macromolecular complex subunit organization0.99160.5775Moderately InformativeInherited
Biological Process (BP)regulation of biological quality0.83010.8829Moderately InformativeInherited
Biological Process (BP)proteolysis0.0000013380.0000000009884InformativeDirect
Biological Process (BP)positive regulation of cellular protein metabolic process0.0003870.0000000009499InformativeDirect
Biological Process (BP)cellular macromolecule catabolic process00InformativeDirect
Biological Process (BP)regulation of protein modification process0.14920.06143InformativeInherited
Biological Process (BP)cell cycle process0.0048120.000003017InformativeInherited
Biological Process (BP)response to nitrogen compound0.18560.00008369InformativeInherited
Biological Process (BP)cellular protein complex assembly0.0028380.0000001154InformativeInherited
Biological Process (BP)mitotic cell cycle0.19780.0001087InformativeInherited
Biological Process (BP)DNA metabolic process0.46471InformativeInherited
Biological Process (BP)cellular response to DNA damage stimulus0.023691InformativeInherited
Biological Process (BP)nuclear division0.0000000077740Highly InformativeDirect
Biological Process (BP)protein modification by small protein conjugation00Highly InformativeDirect
Biological Process (BP)modification-dependent macromolecule catabolic process00Highly InformativeDirect
Biological Process (BP)cellular protein catabolic process00Highly InformativeDirect
Biological Process (BP)protein polymerization0.0000015790Highly InformativeDirect
Biological Process (BP)regulation of cellular response to stress0.0000061950.000000000004021Highly InformativeDirect
Biological Process (BP)regulation of protein modification by small protein conjugation or removal0.000017940.00000000003523Highly InformativeDirect
Biological Process (BP)response to endoplasmic reticulum stress0.018280.01425Highly InformativeInherited
Biological Process (BP)mitotic cell cycle phase transition0.021740.00000000001299Highly InformativeInherited
Molecular Function (MF)transferase activity00Least InformativeDirect
Molecular Function (MF)binding0.013061Least InformativeInherited
Molecular Function (MF)enzyme binding0.0000065940.0002491InformativeDirect
Molecular Function (MF)ligase activity0.32461InformativeInherited
Molecular Function (MF)acid-amino acid ligase activity0.0000087510.00008897Highly InformativeDirect
Molecular Function (MF)ubiquitin-like protein transferase activity00Highly InformativeDirect
Cellular Component (CC)protein complex0.051850.9319Least InformativeInherited
Cellular Component (CC)intracellular membrane-bounded organelle0.31481Least InformativeInherited
Cellular Component (CC)intracellular organelle part11Least InformativeInherited
Cellular Component (CC)transferase complex0.000000000043110.0000001117Moderately InformativeDirect
Cellular Component (CC)nuclear part0.028930.09483Moderately InformativeInherited
Cellular Component (CC)ubiquitin ligase complex00InformativeDirect
Cellular Component (CC)nuclear ubiquitin ligase complex0.000012020Highly 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) macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) primary metabolic process 0 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.1157 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) multicellular organismal process 1 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) cellular response to stress 0 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0.00000000107 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of developmental process 0.8105 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.4507 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.5481 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 0.07823 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.6834 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.4686 Moderately Informative Inherited
Biological Process (BP) tissue development 1 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.8002 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.09971 Moderately Informative Inherited
Biological Process (BP) response to external stimulus 0.2142 Moderately Informative Inherited
Biological Process (BP) response to abiotic stimulus 0.4244 Moderately Informative Inherited
Biological Process (BP) cell communication 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) cellular component assembly 1 Moderately Informative Inherited
Biological Process (BP) protein complex biogenesis 0.009259 Moderately Informative Inherited
Biological Process (BP) reproduction 0.6902 Moderately Informative Inherited
Biological Process (BP) multi-organism process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.03012 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.9737 Moderately Informative Inherited
Biological Process (BP) regulation of cellular 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 molecular function 0.01131 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.01354 Moderately Informative Inherited
Biological Process (BP) single-organism catabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.756 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 0.03705 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.1066 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.7416 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.7088 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.07091 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.5775 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 0.8829 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.001161 Moderately Informative Inherited
Biological Process (BP) mitotic cell cycle 0.0001087 Informative Direct
Biological Process (BP) proteolysis 0.0000000009884 Informative Direct
Biological Process (BP) response to extracellular stimulus 0.000000002643 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 0.0000007362 Informative Direct
Biological Process (BP) cell cycle process 0.000003017 Informative Direct
Biological Process (BP) positive regulation of cellular protein metabolic process 0.0000000009499 Informative Direct
Biological Process (BP) regulation of cellular amide metabolic process 0.000001934 Informative Direct
Biological Process (BP) cellular protein complex assembly 0.0000001154 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 0 Informative Direct
Biological Process (BP) intracellular transport 0.0008315 Informative Direct
Biological Process (BP) regulation of transferase activity 0.0004031 Informative Direct
Biological Process (BP) negative regulation of cell death 0.0001472 Informative Direct
Biological Process (BP) response to nitrogen compound 0.00008369 Informative Direct
Biological Process (BP) cellular component morphogenesis 0.5494 Informative Inherited
Biological Process (BP) generation of neurons 1 Informative Inherited
Biological Process (BP) negative regulation of multicellular organismal process 0.5477 Informative Inherited
Biological Process (BP) regulation of apoptotic process 0.4092 Informative Inherited
Biological Process (BP) regulation of proteolysis 1 Informative Inherited
Biological Process (BP) positive regulation of signal transduction 0.7747 Informative Inherited
Biological Process (BP) negative regulation of macromolecule biosynthetic process 0.5152 Informative Inherited
Biological Process (BP) negative regulation of gene expression 0.6187 Informative Inherited
Biological Process (BP) negative regulation of cellular biosynthetic process 0.7036 Informative Inherited
Biological Process (BP) response to organic cyclic compound 0.1214 Informative Inherited
Biological Process (BP) response to radiation 0.02334 Informative Inherited
Biological Process (BP) positive regulation of catalytic activity 0.1077 Informative Inherited
Biological Process (BP) growth 0.05345 Informative Inherited
Biological Process (BP) developmental process involved in reproduction 0.2179 Informative Inherited
Biological Process (BP) multicellular organism reproduction 0.1119 Informative Inherited
Biological Process (BP) single organism reproductive process 0.4487 Informative Inherited
Biological Process (BP) multi-organism reproductive process 0.4783 Informative Inherited
Biological Process (BP) positive regulation of gene expression 1 Informative Inherited
Biological Process (BP) positive regulation of cellular biosynthetic process 1 Informative Inherited
Biological Process (BP) regulation of anatomical structure size 0.5912 Informative Inherited
Biological Process (BP) positive regulation of macromolecule biosynthetic process 1 Informative Inherited
Biological Process (BP) regulation of cell differentiation 0.2185 Informative Inherited
Biological Process (BP) vesicle-mediated transport 0.064 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.9682 Informative Inherited
Biological Process (BP) negative regulation of molecular function 0.4511 Informative Inherited
Biological Process (BP) cellular response to oxygen-containing compound 0.0338 Informative Inherited
Biological Process (BP) negative regulation of cellular protein metabolic process 0.1645 Informative Inherited
Biological Process (BP) regulation of protein modification process 0.06143 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.06583 Informative Inherited
Biological Process (BP) negative regulation of cellular component organization 0.02418 Informative Inherited
Biological Process (BP) regulation of catabolic process 0.005548 Informative Inherited
Biological Process (BP) cell development 0.7017 Informative Inherited
Biological Process (BP) DNA metabolic process 1 Informative Inherited
Biological Process (BP) cellular response to DNA damage stimulus 1 Informative Inherited
Biological Process (BP) regulation of phosphorylation 0.05227 Informative Inherited
Biological Process (BP) response to oxidative stress 0.1057 Informative Inherited
Biological Process (BP) nuclear division 0 Highly Informative Direct
Biological Process (BP) lysosome organization 0.00000000003929 Highly Informative Direct
Biological Process (BP) response to UV 0.000000003286 Highly Informative Direct
Biological Process (BP) endomembrane system organization 0.0001037 Highly Informative Direct
Biological Process (BP) cell growth 0.00007283 Highly Informative Direct
Biological Process (BP) vesicle organization 0.0000001601 Highly Informative Direct
Biological Process (BP) negative regulation of protein complex assembly 0.00000001481 Highly Informative Direct
Biological Process (BP) response to nutrient levels 0.0000000001522 Highly Informative Direct
Biological Process (BP) cellular response to extracellular stimulus 0.00000000006064 Highly Informative Direct
Biological Process (BP) protein modification by small protein conjugation 0 Highly Informative Direct
Biological Process (BP) cellular response to reactive oxygen species 0.0000000001101 Highly Informative Direct
Biological Process (BP) response to hydrogen peroxide 0.0000000001131 Highly Informative Direct
Biological Process (BP) negative regulation of sequence-specific DNA binding transcription factor activity 0.000004858 Highly Informative Direct
Biological Process (BP) regulation of transcription from RNA polymerase II promoter in response to stress 0.00000006799 Highly Informative Direct
Biological Process (BP) modification-dependent macromolecule catabolic process 0 Highly Informative Direct
Biological Process (BP) negative regulation of multi-organism process 0.000007987 Highly Informative Direct
Biological Process (BP) cellular protein catabolic process 0 Highly Informative Direct
Biological Process (BP) mitotic cell cycle phase transition 0.00000000001299 Highly Informative Direct
Biological Process (BP) protein polymerization 0 Highly Informative Direct
Biological Process (BP) developmental growth involved in morphogenesis 0.0000247 Highly Informative Direct
Biological Process (BP) cellular response to abiotic stimulus 0.0000000171 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 0.000000000004021 Highly Informative Direct
Biological Process (BP) regulation of protein modification by small protein conjugation or removal 0.00000000003523 Highly Informative Direct
Biological Process (BP) neuron development 0.3445 Highly Informative Inherited
Biological Process (BP) plasma membrane bounded cell projection organization 0.8465 Highly Informative Inherited
Biological Process (BP) negative regulation of cell development 0.1244 Highly Informative Inherited
Biological Process (BP) negative regulation of apoptotic process 0.2307 Highly Informative Inherited
Biological Process (BP) regulation of protein catabolic process 0.3377 Highly Informative Inherited
Biological Process (BP) negative regulation of RNA metabolic process 0.5312 Highly Informative Inherited
Biological Process (BP) cellular response to organonitrogen compound 0.01353 Highly Informative Inherited
Biological Process (BP) regulation of reproductive process 0.0883 Highly Informative Inherited
Biological Process (BP) regulation of cell size 0.0582 Highly Informative Inherited
Biological Process (BP) negative regulation of phosphate metabolic process 0.003386 Highly Informative Inherited
Biological Process (BP) response to endoplasmic reticulum stress 0.01425 Highly Informative Inherited
Biological Process (BP) negative regulation of catabolic process 0.005471 Highly Informative Inherited
Biological Process (BP) regulation of autophagy 0.5597 Highly Informative Inherited
Biological Process (BP) spermatogenesis 0.05256 Highly Informative Inherited
Biological Process (BP) germ cell development 0.06459 Highly Informative Inherited
Biological Process (BP) negative regulation of protein modification process 0.2357 Highly Informative Inherited
Molecular Function (MF) transferase activity 0 Least Informative Direct
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 1 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding 1 Moderately Informative Inherited
Molecular Function (MF) enzyme binding 0.0002491 Informative Direct
Molecular Function (MF) ligase activity 1 Informative Inherited
Molecular Function (MF) kinase activity 0.9964 Informative Inherited
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 0.8602 Informative Inherited
Molecular Function (MF) RNA binding 1 Informative Inherited
Molecular Function (MF) acid-amino acid ligase activity 0.00008897 Highly Informative Direct
Molecular Function (MF) ubiquitin-like protein transferase activity 0 Highly Informative Direct
Molecular Function (MF) protein kinase activity 0.3896 Highly Informative Inherited
Cellular Component (CC) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) protein complex 0.9319 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) membrane 1 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) transferase complex 0.0000001117 Moderately Informative Direct
Cellular Component (CC) vesicle 0.967 Moderately Informative Inherited
Cellular Component (CC) endomembrane system 1 Moderately Informative Inherited
Cellular Component (CC) bounding membrane of organelle 0.1569 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.09483 Moderately Informative Inherited
Cellular Component (CC) whole membrane 0.1619 Moderately Informative Inherited
Cellular Component (CC) membrane protein complex 0.06679 Moderately Informative Inherited
Cellular Component (CC) ubiquitin ligase complex 0 Informative Direct
Cellular Component (CC) cytoplasmic vesicle part 0.01852 Informative Inherited
Cellular Component (CC) endosome 0.007216 Informative Inherited
Cellular Component (CC) nuclear ubiquitin ligase complex 0 Highly Informative Direct
Cellular Component (CC) endosome membrane 0.00000115 Highly Informative Direct
Cellular Component (CC) spliceosomal complex 0.05207 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)Ligases0Least InformativeDirect
Enzyme Commission (EC)Forming carbon-nitrogen bonds0Moderately InformativeDirect
Enzyme Commission (EC)Acid--D-amino-acid ligases (peptide synthases)0InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport1Least InformativeInherited
Biological processUbl conjugation pathway0Moderately InformativeDirect
Biological processCell cycle0.000000000000008934Moderately InformativeDirect
Biological processApoptosis0.000000000004774Moderately InformativeDirect
Biological processProtein transport0.0000005889Moderately InformativeDirect
Biological processDNA damage0.00001585Moderately InformativeDirect
Biological processDifferentiation0.0004164Moderately InformativeDirect
Biological processSporulation0.00000000000000168InformativeDirect
Biological processTranslation regulation0.00000000001081InformativeDirect
Biological processNeurogenesis0.000000002419InformativeDirect
Biological processStress response0.0000009913InformativeDirect
Biological processGrowth regulation0.00001284Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentEndosome0.0000000293Moderately InformativeDirect
Cellular componentEndoplasmic reticulum0.0004936Moderately InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Post-translational modificationTransferase0Least InformativeDirect
Post-translational modificationChromatin regulator0.0000000001603InformativeDirect
Post-translational modificationActin-binding0.0003018InformativeDirect
Post-translational modificationAcetylation0.000000000000001424Least InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond0.00007625Moderately InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) ]

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 42 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 UBC-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 42 hidden Markov models representing the UBC-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) · UniProtKB KeyWords (KW) · Internal database links ]