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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 (3,208) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 19,201 33,972 45
Proteins 17,633 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 0.000000000001736 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 0.8821 Least Informative Inherited
Biological Process (BP) biological regulation 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) cellular nitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) organonitrogen compound metabolic process 1 Least Informative Inherited
Biological Process (BP) macromolecule localization 0.000008379 Moderately Informative Direct
Biological Process (BP) cellular catabolic process 0.00004557 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 0.000000005673 Moderately Informative Direct
Biological Process (BP) organic substance catabolic process 0.00008326 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of metabolic process 0.9506 Moderately Informative Inherited
Biological Process (BP) regulation of localization 0.7464 Moderately Informative Inherited
Biological Process (BP) regulation of response to stimulus 0.2431 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 0.239 Moderately Informative Inherited
Biological Process (BP) regulation of signaling 0.2369 Moderately Informative Inherited
Biological Process (BP) response to stress 0.07674 Moderately Informative Inherited
Biological Process (BP) single-organism catabolic process 0.06486 Moderately Informative Inherited
Biological Process (BP) single-organism transport 1 Moderately Informative Inherited
Biological Process (BP) regulation of cellular metabolic process 0.08773 Moderately Informative Inherited
Biological Process (BP) regulation of biological quality 1 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.863 Moderately Informative Inherited
Biological Process (BP) cellular protein modification process 1 Moderately Informative Inherited
Biological Process (BP) reproduction 1 Moderately Informative Inherited
Biological Process (BP) multi-organism process 1 Moderately Informative Inherited
Biological Process (BP) cellular localization 0.08053 Moderately Informative Inherited
Biological Process (BP) negative regulation of cellular process 0.1763 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.5971 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.2852 Moderately Informative Inherited
Biological Process (BP) gene expression 1 Moderately Informative Inherited
Biological Process (BP) peptide metabolic process 0.7664 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 1 Moderately Informative Inherited
Biological Process (BP) amide biosynthetic process 0.7192 Moderately Informative Inherited
Biological Process (BP) organic substance transport 0.003806 Moderately Informative Inherited
Biological Process (BP) proteolysis 0.0000000001307 Informative Direct
Biological Process (BP) nucleocytoplasmic transport 0.000001603 Informative Direct
Biological Process (BP) regulation of catabolic process 0 Informative Direct
Biological Process (BP) phosphorylation 0.0003114 Informative Direct
Biological Process (BP) regulation of proteolysis 0.00001988 Informative Direct
Biological Process (BP) cellular macromolecule catabolic process 0.00000000001022 Informative Direct
Biological Process (BP) nitrogen compound transport 0.00000001503 Informative Direct
Biological Process (BP) positive regulation of cellular protein metabolic process 0.3655 Informative Inherited
Biological Process (BP) regulation of protein modification process 1 Informative Inherited
Biological Process (BP) regulation of transmembrane transport 0.02784 Informative Inherited
Biological Process (BP) regulation of ion transport 0.2313 Informative Inherited
Biological Process (BP) epithelium development 0.9019 Informative Inherited
Biological Process (BP) embryo development 0.797 Informative Inherited
Biological Process (BP) generation of neurons 0.9421 Informative Inherited
Biological Process (BP) regulation of intracellular signal transduction 0.7086 Informative Inherited
Biological Process (BP) regulation of phosphorylation 0.4787 Informative Inherited
Biological Process (BP) multi-organism reproductive process 0.5259 Informative Inherited
Biological Process (BP) negative regulation of molecular function 0.01561 Informative Inherited
Biological Process (BP) regulation of transferase activity 0.2586 Informative Inherited
Biological Process (BP) negative regulation of cellular protein metabolic process 0.1956 Informative Inherited
Biological Process (BP) autophagy 0.0000000009479 Highly Informative Direct
Biological Process (BP) negative regulation of catabolic process 0.00003885 Highly Informative Direct
Biological Process (BP) positive regulation of catabolic process 0.00000003381 Highly Informative Direct
Biological Process (BP) nucleobase-containing compound transport 0 Highly Informative Direct
Biological Process (BP) modification-dependent protein catabolic process 0 Highly Informative Direct
Biological Process (BP) regulation of cellular catabolic process 0 Highly Informative Direct
Biological Process (BP) regulation of protein stability 0.000005282 Highly Informative Direct
Biological Process (BP) response to endoplasmic reticulum stress 0.00004104 Highly Informative Direct
Biological Process (BP) regulation of protein catabolic process 0 Highly Informative Direct
Biological Process (BP) nuclear export 0.0000000007301 Highly Informative Direct
Biological Process (BP) establishment of RNA localization 0 Highly Informative Direct
Biological Process (BP) ribonucleoprotein complex localization 0.000000000005052 Highly Informative Direct
Biological Process (BP) regulation of cellular response to stress 0.0005692 Highly Informative Direct
Biological Process (BP) regulation of protein modification by small protein conjugation or removal 0.0000005864 Highly Informative Direct
Biological Process (BP) regulation of calcium ion transport 0.003328 Highly Informative Inherited
Biological Process (BP) regulation of cation transmembrane transport 0.007511 Highly Informative Inherited
Biological Process (BP) positive regulation of proteolysis 0.02096 Highly Informative Inherited
Biological Process (BP) gastrulation 0.02536 Highly Informative Inherited
Biological Process (BP) morphogenesis of an epithelium 0.5888 Highly Informative Inherited
Biological Process (BP) negative regulation of phosphate metabolic process 0.01641 Highly Informative Inherited
Biological Process (BP) negative regulation of transferase activity 0.002695 Highly Informative Inherited
Biological Process (BP) proteasomal protein catabolic process 0.5166 Highly Informative Inherited
Biological Process (BP) pattern specification process 0.01499 Highly Informative Inherited
Biological Process (BP) negative regulation of protein modification process 0.005685 Highly Informative Inherited
Molecular Function (MF) binding 0.0000001495 Least Informative Direct
Molecular Function (MF) hydrolase activity 0.9816 Least Informative Inherited
Molecular Function (MF) transferase activity 1 Least Informative Inherited
Molecular Function (MF) protein binding 0.000001134 Moderately Informative Direct
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.8109 Moderately Informative Inherited
Molecular Function (MF) nucleic acid binding 0.006449 Moderately Informative Inherited
Molecular Function (MF) metal ion binding 0.7394 Moderately Informative Inherited
Molecular Function (MF) magnesium ion binding 0.0009403 Informative Direct
Molecular Function (MF) macromolecular complex binding 0.03366 Informative Inherited
Molecular Function (MF) phosphoric ester hydrolase activity 0.1715 Informative Inherited
Molecular Function (MF) RNA binding 0.00846 Informative Inherited
Molecular Function (MF) enzyme binding 0.004273 Informative Inherited
Molecular Function (MF) peptidase activity, acting on L-amino acid peptides 0.001026 Informative Inherited
Molecular Function (MF) DNA binding 1 Informative Inherited
Molecular Function (MF) transcription factor activity, transcription factor binding 0.0003945 Highly Informative Direct
Molecular Function (MF) single-stranded DNA binding 0.000003679 Highly Informative Direct
Molecular Function (MF) ubiquitin-like protein transferase activity 0.0000001245 Highly Informative Direct
Molecular Function (MF) manganese ion binding 0.00001633 Highly Informative Direct
Molecular Function (MF) phosphoric diester hydrolase activity 0.001014 Highly Informative Inherited
Molecular Function (MF) kinase binding 0.03537 Highly Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.04561 Least Informative Inherited
Cellular Component (CC) cytoplasmic part 1 Least Informative Inherited
Cellular Component (CC) non-membrane-bounded organelle 1 Least Informative Inherited
Cellular Component (CC) intracellular organelle part 0.9496 Least Informative Inherited
Cellular Component (CC) protein complex 0.002193 Least Informative Inherited
Cellular Component (CC) intracellular organelle lumen 0.4394 Moderately Informative Inherited
Cellular Component (CC) vacuole 0.02004 Moderately Informative Inherited
Cellular Component (CC) organelle envelope 0.2337 Moderately Informative Inherited
Cellular Component (CC) nuclear part 0.001213 Moderately Informative Inherited
Cellular Component (CC) nuclear envelope 0.0000431 Informative Direct
Cellular Component (CC) nucleoplasm part 0.05899 Informative Inherited
Cellular Component (CC) ribonucleoprotein granule 0.01135 Informative Inherited
Cellular Component (CC) cytoplasmic mRNA processing body 0.00002319 Highly Informative Direct
Cellular Component (CC) peptidase complex 0.0002668 Highly Informative Direct

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/homeostasis0.07594Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of circulating enzyme level0.00008082InformativeDirect

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 variant0.04931Least InformativeInherited
Worm Phenotype (WP)cell development variant0.3253Least InformativeInherited
Worm Phenotype (WP)protein protein interaction variant0.0005771Moderately InformativeDirect
Worm Phenotype (WP)cell migration variant0.004397InformativeInherited

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)nervous system0Least InformativeDirect

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)Hydrolases0.00000000476Least InformativeDirect
Enzyme Commission (EC)Transferring phosphorus-containing groups0.5334Least InformativeInherited
Enzyme Commission (EC)Lyases0.9547Least InformativeInherited
Enzyme Commission (EC)Acting on peptide bonds (peptidases)0.0000000001453Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0.0000012Moderately InformativeDirect
Enzyme Commission (EC)Acyltransferases0.00001657Moderately InformativeDirect
Enzyme Commission (EC)Carbon-oxygen lyases0.3659Moderately InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides0.5417Moderately InformativeInherited
Enzyme Commission (EC)Omega peptidases0InformativeDirect
Enzyme Commission (EC)Aminoacyltransferases0.00000000000005168InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0.00000007641InformativeDirect
Enzyme Commission (EC)HECT-type E3 ubiquitin transferase0.0002868Highly 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 transport0.000000000001076Moderately InformativeDirect
Biological processImmunity0.0004216Moderately InformativeDirect
Biological processDifferentiation0.3612Moderately InformativeInherited
Biological processAutophagy0InformativeDirect
Biological processProtein biosynthesis0InformativeDirect
Biological processInflammatory response0.0000002358InformativeDirect
Biological processmRNA transport0.000000001087Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentCytoplasmic vesicle0.0008666Moderately InformativeDirect
Cellular componentLipid droplet0.000006698Highly InformativeDirect
Cellular componentProteasome0.0001606Highly InformativeDirect
DomainTransit peptide0.000008068Moderately InformativeDirect
DomainLeucine-rich repeat0.0003963InformativeDirect
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationProtease0.8273Moderately InformativeInherited
Post-translational modificationThiol protease0.000000004157InformativeDirect
Post-translational modificationElongation factor0Highly InformativeDirect
Post-translational modificationPhosphoprotein0.000005254Least InformativeDirect
Post-translational modificationNitration0.00005981InformativeDirect

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)
UP termFDR (all)SDUP levelAnnotation (direct or inherited)
UniPathway (UP)biopolymer metabolism9.126e-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) · 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

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) · 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 ]