SUPERFAMILY 1.75 HMM library and genome assignments server


YbaK/ProRS associated domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   YbaK/ProRS associated domain [ 55825]
Superfamily:   YbaK/ProRS associated domain [ 55826]
Families:   YbaK/ProRS associated domain [ 55827] (4)


Superfamily statistics
Genomes (2,591) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 5,708 16,080 4
Proteins 5,707 16,079 4


Functional annotation
General category Other
Detailed category Unknown function

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)regulation of cellular process0.2470.7768Least InformativeInherited
Biological Process (BP)regulation of metabolic process0.052150.2487Least InformativeInherited
Biological Process (BP)regulation of cellular biosynthetic process0.0038720.04435Moderately InformativeInherited
Biological Process (BP)regulation of gene expression0.0046950.05452Moderately InformativeInherited
Biological Process (BP)regulation of protein metabolic process0.0010910.0007809Moderately InformativeInherited
Biological Process (BP)regulation of macromolecule biosynthetic process0.0027090.03546Moderately InformativeInherited
Biological Process (BP)posttranscriptional regulation of gene expression8.388e-062.666e-06InformativeDirect
Biological Process (BP)regulation of translation5.628e-077.137e-08Highly InformativeDirect
Molecular Function (MF)hydrolase activity0.083120.02469Least InformativeInherited
Molecular Function (MF)hydrolase activity, acting on ester bonds0.0030830.0001131Moderately InformativeInherited
Molecular Function (MF)carboxylic ester hydrolase activity8.257e-063.053e-09Highly 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) regulation of cellular process 0.7768 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.2487 Least Informative Inherited
Biological Process (BP) regulation of protein metabolic process 0.0007809 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 0.04435 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.05452 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.03546 Moderately Informative Inherited
Biological Process (BP) posttranscriptional regulation of gene expression 2.666e-06 Informative Direct
Biological Process (BP) regulation of translation 7.137e-08 Highly Informative Direct
Molecular Function (MF) hydrolase activity 0.02469 Least Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 0.0001131 Moderately Informative Direct
Molecular Function (MF) carboxylic ester hydrolase activity 3.053e-09 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)Ligases0Least InformativeDirect
Enzyme Commission (EC)Ligases forming aminoacyl-tRNA and related compoun0Moderately InformativeDirect
Enzyme Commission (EC)Proline--tRNA ligase0Highly InformativeDirect

Document: EC 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)Ligases forming aminoacyl-tRNA and related compounds0InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processProtein biosynthesis0InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Post-translational modificationLigase0Moderately InformativeDirect
Post-translational modificationAminoacyl-tRNA synthetase0InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR007214 SSF55826 Protein matches
Abstract This domain of unknown function is found in numerous prokaryote organisms. The structure of YbaK shows a novel fold. This domain also occurs in a number of prolyl-tRNA synthetases (proRS) from prokaryotes. Thus, the domain is thought to be involved in oligonucleotide binding, with possible roles in recognition/discrimination or editing of prolyl-tRNA [PubMed10813833].

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-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · 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 4 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 YbaK/ProRS associated domain 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 4 hidden Markov models representing the YbaK/ProRS associated domain 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-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]