SUPERFAMILY 1.75 HMM library and genome assignments server


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 (485) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 18,615 15,289 68
Proteins 18,351 15,063 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)protein metabolic process00Least InformativeDirect
Biological Process (BP)cellular macromolecule metabolic process00Least InformativeDirect
Biological Process (BP)cellular component organization or biogenesis0.0031470.1636Least InformativeInherited
Biological Process (BP)biosynthetic process11Least InformativeInherited
Biological Process (BP)heterocycle metabolic process11Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.95430.86Least InformativeInherited
Biological Process (BP)single-organism cellular process0.63111Least InformativeInherited
Biological Process (BP)cellular aromatic compound metabolic process11Least InformativeInherited
Biological Process (BP)nitrogen compound metabolic process11Least InformativeInherited
Biological Process (BP)organic cyclic compound metabolic process11Least InformativeInherited
Biological Process (BP)response to stimulus1.821e-051Least InformativeInherited
Biological Process (BP)regulation of cellular process0.11291Least InformativeInherited
Biological Process (BP)macromolecule catabolic process00Moderately InformativeDirect
Biological Process (BP)cellular response to stress6.167e-152.951e-14Moderately InformativeDirect
Biological Process (BP)cellular catabolic process4.969e-100Moderately InformativeDirect
Biological Process (BP)cellular protein modification process0.00061720.2725Moderately InformativeInherited
Biological Process (BP)macromolecular complex subunit organization0.0021090.001922Moderately InformativeInherited
Biological Process (BP)regulation of protein metabolic process0.054384.109e-07Moderately InformativeInherited
Biological Process (BP)regulation of cellular component organization0.00071080.4618Moderately InformativeInherited
Biological Process (BP)regulation of developmental process0.038961Moderately InformativeInherited
Biological Process (BP)positive regulation of molecular function0.43940.02725Moderately InformativeInherited
Biological Process (BP)regulation of catalytic activity10.4608Moderately InformativeInherited
Biological Process (BP)organelle organization0.057750.0001186Moderately InformativeInherited
Biological Process (BP)cellular component biogenesis0.15210.1285Moderately InformativeInherited
Biological Process (BP)cellular macromolecule biosynthetic process11Moderately InformativeInherited
Biological Process (BP)response to organic substance0.00027560.3137Moderately InformativeInherited
Biological Process (BP)positive regulation of metabolic process0.093850.9345Moderately InformativeInherited
Biological Process (BP)positive regulation of cellular process11Moderately InformativeInherited
Biological Process (BP)proteolysis5.256e-110InformativeDirect
Biological Process (BP)response to DNA damage stimulus1.931e-072.069e-06InformativeDirect
Biological Process (BP)cell cycle process2.602e-080InformativeDirect
Biological Process (BP)protein catabolic process00InformativeDirect
Biological Process (BP)cellular macromolecular complex assembly5.431e-105.675e-12InformativeDirect
Biological Process (BP)cellular macromolecule catabolic process00InformativeDirect
Biological Process (BP)positive regulation of protein metabolic process0.00039690.0007855InformativeDirect
Biological Process (BP)regulation of growth0.004760.02736InformativeInherited
Biological Process (BP)regulation of anatomical structure morphogenesis0.052320.4787InformativeInherited
Biological Process (BP)protein complex assembly0.036383.766e-05InformativeInherited
Biological Process (BP)DNA metabolic process0.00075040.293InformativeInherited
Biological Process (BP)regulation of cell growth1.561e-050.0002092Highly InformativeDirect
Biological Process (BP)regulation of protein ubiquitination9.149e-058.232e-13Highly InformativeDirect
Biological Process (BP)response to topologically incorrect protein1.647e-107.379e-12Highly InformativeDirect
Biological Process (BP)regulation of ligase activity3.686e-050Highly InformativeDirect
Biological Process (BP)regulation of proteolysis0.0049990.02496Highly InformativeInherited
Biological Process (BP)regulation of protein catabolic process0.00031290.005769Highly InformativeInherited
Biological Process (BP)regulation of developmental growth2.442e-060.001501Highly InformativeInherited
Biological Process (BP)DNA replication0.0030010.1531Highly InformativeInherited
Biological Process (BP)protein polymerization0.050522.542e-07Highly InformativeInherited
Biological Process (BP)mitosis0.001321.931e-10Highly InformativeInherited
Molecular Function (MF)binding0.00080671Least InformativeInherited
Molecular Function (MF)ligase activity, forming carbon-nitrogen bonds00InformativeDirect
Molecular Function (MF)enzyme binding0.0029460.03263InformativeInherited
Molecular Function (MF)small conjugating protein ligase activity00Highly InformativeDirect
Cellular Component (CC)intracellular membrane-bounded organelle0.41041Least InformativeInherited
Cellular Component (CC)intracellular organelle part11Least InformativeInherited
Cellular Component (CC)protein complex5.862e-050.1315Least InformativeInherited
Cellular Component (CC)nuclear part0.072620.4318Moderately InformativeInherited
Cellular Component (CC)ubiquitin ligase complex00InformativeDirect
Cellular Component (CC)nuclear ubiquitin ligase complex1.431e-050Highly InformativeDirect
Cellular Component (CC)cullin-RING ubiquitin ligase complex11Highly InformativeInherited

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) cellular macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.1636 Least Informative Inherited
Biological Process (BP) localization 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 1 Least Informative Inherited
Biological Process (BP) regulation of cellular process 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) regulation of metabolic process 0.86 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) organic cyclic compound metabolic process 1 Least Informative Inherited
Biological Process (BP) organelle organization 0.0001186 Moderately Informative Direct
Biological Process (BP) macromolecule catabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular response to stress 2.951e-14 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 4.109e-07 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 0.2725 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.001922 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.4618 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.02725 Moderately Informative Inherited
Biological Process (BP) regulation of catalytic activity 0.4608 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.2232 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 0.1285 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 1 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.3137 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.9345 Moderately Informative Inherited
Biological Process (BP) protein complex assembly 3.766e-05 Informative Direct
Biological Process (BP) proteolysis 0 Informative Direct
Biological Process (BP) response to DNA damage stimulus 2.069e-06 Informative Direct
Biological Process (BP) cell cycle process 0 Informative Direct
Biological Process (BP) protein catabolic process 0 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 5.675e-12 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 0 Informative Direct
Biological Process (BP) positive regulation of protein metabolic process 0.0007855 Informative Direct
Biological Process (BP) regulation of growth 0.02736 Informative Inherited
Biological Process (BP) regulation of anatomical structure morphogenesis 0.4787 Informative Inherited
Biological Process (BP) cytoplasmic transport 0.003846 Informative Inherited
Biological Process (BP) vesicle-mediated transport 0.2446 Informative Inherited
Biological Process (BP) posttranscriptional regulation of gene expression 0.001719 Informative Inherited
Biological Process (BP) DNA metabolic process 0.293 Informative Inherited
Biological Process (BP) regulation of cell growth 0.0002092 Highly Informative Direct
Biological Process (BP) regulation of translation 3.18e-05 Highly Informative Direct
Biological Process (BP) lysosome organization 3.471e-11 Highly Informative Direct
Biological Process (BP) mitosis 1.931e-10 Highly Informative Direct
Biological Process (BP) proteasomal protein catabolic process 0.0002045 Highly Informative Direct
Biological Process (BP) regulation of protein ubiquitination 8.232e-13 Highly Informative Direct
Biological Process (BP) response to topologically incorrect protein 7.379e-12 Highly Informative Direct
Biological Process (BP) protein polymerization 2.542e-07 Highly Informative Direct
Biological Process (BP) regulation of ligase activity 0 Highly Informative Direct
Biological Process (BP) protein ubiquitination 1 Highly Informative Inherited
Biological Process (BP) regulation of proteolysis 0.02496 Highly Informative Inherited
Biological Process (BP) regulation of protein catabolic process 0.005769 Highly Informative Inherited
Biological Process (BP) regulation of developmental growth 0.001501 Highly Informative Inherited
Biological Process (BP) DNA replication 0.1531 Highly Informative Inherited
Biological Process (BP) ubiquitin-dependent protein catabolic process 0.7177 Highly Informative Inherited
Molecular Function (MF) binding 1 Least Informative Inherited
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 1 Moderately Informative Inherited
Molecular Function (MF) ligase activity, forming carbon-nitrogen bonds 0 Informative Direct
Molecular Function (MF) enzyme binding 0.03263 Informative Inherited
Molecular Function (MF) kinase activity 1 Informative Inherited
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 1 Informative Inherited
Molecular Function (MF) small conjugating protein ligase activity 0 Highly Informative Direct
Molecular Function (MF) protein kinase activity 0.7977 Highly 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) intracellular organelle part 1 Least Informative Inherited
Cellular Component (CC) protein complex 0.1315 Least Informative Inherited
Cellular Component (CC) organelle membrane 0.7481 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.4318 Moderately Informative Inherited
Cellular Component (CC) ubiquitin ligase complex 0 Informative Direct
Cellular Component (CC) endosome 0.002438 Informative Inherited
Cellular Component (CC) nuclear ubiquitin ligase complex 0 Highly Informative Direct
Cellular Component (CC) endosomal part 2.729e-07 Highly Informative Direct
Cellular Component (CC) cullin-RING ubiquitin ligase complex 1 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

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism metabolism processing variant4.857e-09Least InformativeDirect
Worm Phenotype (WP)protein aggregation variant0Moderately InformativeDirect
Worm Phenotype (WP)pattern of transgene expression variant6.724e-15Moderately InformativeDirect
Worm Phenotype (WP)organism segment morphology variant0.2518Moderately InformativeInherited

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect

Document: YP annotation of SCOP domains

Fly Anatomy (FA)

(show details) Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)cell0.002015Least InformativeInherited
Xenopus ANatomical entity (XAN)gamete0.0003294Moderately 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)sporangium0.0003729Least InformativeDirect
Plant ANatomical entity (PAN)whole plant0.01638Least InformativeInherited
Plant ANatomical entity (PAN)microsporophyll0.07285Least InformativeInherited
Plant ANatomical entity (PAN)pollen tube cell2.3e-05InformativeDirect
Plant structure DEvelopment stage (PDE)pollen development stage1.184e-08Moderately InformativeDirect

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Ligases0Moderately InformativeDirect
Enzyme Commission (EC)Acid--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 processCell cycle2.767e-13Moderately InformativeDirect
Biological processApoptosis1.917e-12Moderately InformativeDirect
Biological processProtein transport2.855e-07Moderately InformativeDirect
Biological processDNA damage1.942e-05Moderately InformativeDirect
Biological processUbl conjugation pathway0InformativeDirect
Biological processSporulation2.365e-16InformativeDirect
Biological processTranslation regulation2.479e-06InformativeDirect
Biological processGrowth regulation3.029e-06Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentEndosome2.778e-09Moderately InformativeDirect
Cellular componentEndoplasmic reticulum0.0004137Moderately InformativeDirect
Coding sequence diversityAlternative splicing0.0007253Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Post-translational modificationLigase0Moderately InformativeDirect
Post-translational modificationChromatin regulator7.334e-11InformativeDirect
Post-translational modificationAcetylation0Least InformativeDirect
Post-translational modificationUbl conjugation0Moderately InformativeDirect
Post-translational modificationIsopeptide bond5.701e-05Moderately 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) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · 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) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]