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UBA-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   RuvA C-terminal domain-like [ 46928] (9)
Superfamily:   UBA-like [ 46934] (4)
Families:   UBA domain [ 46935] (24)
  TS-N domain [ 63423]
  TAP-C domain-like [ 68973] (2)
  CUE domain [ 88995] (4)


Superfamily statistics
Genomes (3,212) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 19,346 33,972 45
Proteins 17,766 32,445 44


Functional annotation
General category General
Detailed category Protein interaction

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) macromolecule metabolic process 0.0000000000002952 Least Informative Direct
Biological Process (BP) organonitrogen compound metabolic process 0.00003307 Least Informative Direct
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) primary metabolic process 1 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.0000000008945 Moderately Informative Direct
Biological Process (BP) cellular response to stress 0.000000217 Moderately Informative Direct
Biological Process (BP) macromolecule localization 0.000000622 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0.000001701 Moderately Informative Direct
Biological Process (BP) nitrogen compound transport 0.0001386 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.0005156 Moderately Informative Direct
Biological Process (BP) regulation of response to stimulus 0.2101 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.9262 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 1 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) system development 1 Moderately Informative Inherited
Biological Process (BP) cellular developmental process 1 Moderately Informative Inherited
Biological Process (BP) regulation of cell communication 0.1636 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.1693 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.5398 Moderately Informative Inherited
Biological Process (BP) single-organism catabolic process 0.07321 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.9625 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.2573 Moderately Informative Inherited
Biological Process (BP) single-organism transport 1 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.00393 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) reproduction 0.9607 Moderately Informative Inherited
Biological Process (BP) multi-organism process 1 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.6922 Moderately Informative Inherited
Biological Process (BP) amide biosynthetic process 0.7631 Moderately Informative Inherited
Biological Process (BP) peptide metabolic process 1 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.04411 Moderately Informative Inherited
Biological Process (BP) gene expression 1 Moderately Informative Inherited
Biological Process (BP) regulation of catabolic process 0 Informative Direct
Biological Process (BP) proteolysis 0.000000000006221 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 0.00000000009208 Informative Direct
Biological Process (BP) regulation of proteolysis 0.00001981 Informative Direct
Biological Process (BP) phosphorylation 0.0003788 Informative Direct
Biological Process (BP) regulation of protein modification process 1 Informative Inherited
Biological Process (BP) regulation of transmembrane transport 0.03348 Informative Inherited
Biological Process (BP) regulation of ion transport 0.1958 Informative Inherited
Biological Process (BP) positive regulation of cellular protein metabolic process 0.3609 Informative Inherited
Biological Process (BP) intracellular protein transport 0.00392 Informative Inherited
Biological Process (BP) tissue development 1 Informative Inherited
Biological Process (BP) embryo development 0.8503 Informative Inherited
Biological Process (BP) generation of neurons 0.9933 Informative Inherited
Biological Process (BP) regulation of intracellular signal transduction 0.6983 Informative Inherited
Biological Process (BP) response to nitrogen compound 0.1234 Informative Inherited
Biological Process (BP) regulation of transferase activity 0.2822 Informative Inherited
Biological Process (BP) regulation of phosphorylation 0.5236 Informative Inherited
Biological Process (BP) multi-organism reproductive process 0.5519 Informative Inherited
Biological Process (BP) negative regulation of protein metabolic process 0.0316 Informative Inherited
Biological Process (BP) negative regulation of molecular function 0.02139 Informative Inherited
Biological Process (BP) nucleobase-containing compound transport 0 Highly Informative Direct
Biological Process (BP) establishment of RNA localization 0 Highly Informative Direct
Biological Process (BP) regulation of proteolysis involved in cellular protein catabolic process 0 Highly Informative Direct
Biological Process (BP) ribonucleoprotein complex localization 0.00000000002682 Highly Informative Direct
Biological Process (BP) nuclear export 0.000000001014 Highly Informative Direct
Biological Process (BP) nucleocytoplasmic transport 0.000000002379 Highly Informative Direct
Biological Process (BP) regulation of protein modification by small protein conjugation or removal 0.000000006004 Highly Informative Direct
Biological Process (BP) modification-dependent macromolecule catabolic process 0.00000006138 Highly Informative Direct
Biological Process (BP) regulation of protein stability 0.000001266 Highly Informative Direct
Biological Process (BP) positive regulation of catabolic process 0.000003901 Highly Informative Direct
Biological Process (BP) response to endoplasmic reticulum stress 0.00005258 Highly Informative Direct
Biological Process (BP) autophagy 0.00006609 Highly Informative Direct
Biological Process (BP) negative regulation of catabolic process 0.0003051 Highly Informative Direct
Biological Process (BP) proteolysis involved in cellular protein catabolic process 0.0003706 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 0.0008399 Highly Informative Direct
Biological Process (BP) regulation of calcium ion transport 0.004544 Highly Informative Inherited
Biological Process (BP) regulation of cation transmembrane transport 0.01304 Highly Informative Inherited
Biological Process (BP) positive regulation of proteolysis 0.008413 Highly Informative Inherited
Biological Process (BP) gastrulation 0.02805 Highly Informative Inherited
Biological Process (BP) morphogenesis of an epithelium 0.5399 Highly Informative Inherited
Biological Process (BP) negative regulation of transferase activity 0.002902 Highly Informative Inherited
Biological Process (BP) negative regulation of phosphate metabolic process 0.01955 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.01747 Highly Informative Inherited
Biological Process (BP) negative regulation of protein modification process 0.005084 Highly Informative Inherited
Molecular Function (MF) binding 0.00000004018 Least Informative Direct
Molecular Function (MF) hydrolase activity 0.9869 Least Informative Inherited
Molecular Function (MF) transferase activity 0.9919 Least Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.846 Moderately Informative Inherited
Molecular Function (MF) metal ion binding 0.8199 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding 0.004011 Moderately Informative Inherited
Molecular Function (MF) peptidase activity, acting on L-amino acid peptides 0.0005725 Informative Direct
Molecular Function (MF) macromolecular complex binding 0.08448 Informative Inherited
Molecular Function (MF) enzyme binding 0.003969 Informative Inherited
Molecular Function (MF) DNA binding 1 Informative Inherited
Molecular Function (MF) ubiquitin-like protein transferase activity 0.000000009094 Highly Informative Direct
Molecular Function (MF) single-stranded DNA binding 0.000005874 Highly Informative Direct
Molecular Function (MF) manganese ion binding 0.00002792 Highly Informative Direct
Molecular Function (MF) transcription factor activity, transcription factor binding 0.000492 Highly Informative Direct
Molecular Function (MF) phosphoric diester hydrolase activity 0.001071 Highly Informative Inherited
Molecular Function (MF) protein domain specific binding 0.01543 Highly Informative Inherited
Molecular Function (MF) kinase binding 0.02107 Highly Informative Inherited
Cellular Component (CC) macromolecular complex 0.2765 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.02195 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.8488 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) nuclear part 0.0004401 Moderately Informative Direct
Cellular Component (CC) organelle envelope 0.3138 Moderately Informative Inherited
Cellular Component (CC) nuclear envelope 0.00007972 Informative Direct
Cellular Component (CC) ribonucleoprotein granule 0.01775 Informative Inherited
Cellular Component (CC) P-body 0.00006878 Highly Informative Direct
Cellular Component (CC) peptidase complex 0.001481 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)0.000000005998Least InformativeDirect
Enzyme Commission (EC)Ligases0.5691Least InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides0.8024Least InformativeInherited
Enzyme Commission (EC)Omega peptidases0Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0.0000001025Moderately InformativeDirect
Enzyme Commission (EC)Acting on acid anhydrides; involved in cellular an0.0003685Moderately InformativeDirect
Enzyme Commission (EC)Forming carbon-nitrogen bonds0.02125Moderately InformativeInherited
Enzyme Commission (EC)Acid--D-amino-acid ligases (peptide synthases)0.0001583InformativeDirect

Document: EC annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of metabolism/homeostasis0.07514Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of circulating enzyme level0.00008186InformativeDirect

Document: HP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism metabolism processing variant0.06103Least InformativeInherited
Worm Phenotype (WP)cell development variant0.3273Least InformativeInherited
Worm Phenotype (WP)protein protein interaction variant0.0005993Moderately InformativeDirect
Worm Phenotype (WP)neuron migration variant0.00008246InformativeDirect

Document: WP annotation of SCOP domains

Zebrafish Anatomy (ZA)

(show details) Document: ZA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details) Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0.00000004492Least InformativeDirect
Enzyme Commission (EC)Transferring phosphorus-containing groups0.8057Least InformativeInherited
Enzyme Commission (EC)Lyases1Least InformativeInherited
Enzyme Commission (EC)Acting on peptide bonds (peptidases)0.0000000001609Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases0.0000000793Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0.000002183Moderately InformativeDirect
Enzyme Commission (EC)Carbon-oxygen lyases0.4146Moderately InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides0.5386Moderately InformativeInherited
Enzyme Commission (EC)Omega peptidases0InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0.000000146InformativeDirect
Enzyme Commission (EC)HECT-type E3 ubiquitin transferase0.0001368Highly InformativeDirect

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 processProtein transport0.000000000001016Moderately InformativeDirect
Biological processImmunity0.0004981Moderately InformativeDirect
Biological processDifferentiation0.3883Moderately InformativeInherited
Biological processAutophagy0InformativeDirect
Biological processProtein biosynthesis0InformativeDirect
Biological processInflammatory response0.0000002383InformativeDirect
Biological processmRNA transport0.00000000153Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentLipid droplet0.000006486Highly InformativeDirect
Cellular componentProteasome0.0001542Highly InformativeDirect
DomainLeucine-rich repeat0.0004285InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationProtease0.8364Moderately InformativeInherited
Post-translational modificationThiol protease0.000000004073InformativeDirect
Post-translational modificationElongation factor0Highly InformativeDirect
Post-translational modificationPhosphoprotein0.000005074Least InformativeDirect
Post-translational modificationUbl conjugation0.00009318Moderately InformativeDirect
Post-translational modificationNitration0.00005863InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism9.148e-16Least InformativeDirect
UniPathway (UP)protein ubiquitination0Moderately InformativeDirect

Document: UP annotation of SCOP domains

InterPro annotation
Cross references IPR009060 SSF46934 Protein matches
Abstract

UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases [PubMed12079361]. HHR23A, the human homologue of yeast Rad23A is a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The fold of the UBA domain consists of a compact three-helical bundle with a right-handed twist, and have a conserved hydrophobic surface patch for protein-protein interactions. UBA-like domains can be found in other proteins as well, such as the TS-N domain in the elongation factor Ts (EF-Ts), which catalyses the recycling of the GTPase EF-Tu required for the binding of aminoacyl-tRNA top the ribosomal A site [PubMed11744709]; and the C-terminal domain of TAP/NXF1, which functions in nuclear export through the interaction of its UBA-like domain with FG nucleoporins [PubMed12581645].


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Human Phenotype (HP) · Worm Phenotype (WP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 39 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 UBA-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 39 hidden Markov models representing the UBA-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 · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Human Phenotype (HP) · Worm Phenotype (WP) · Zebrafish Anatomy (ZA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) · Internal database links ]