SUPERFAMILY 1.75 HMM library and genome assignments server


ThrRS/AlaRS common domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   RRF/tRNA synthetase additional domain-like [ 55185] (4)
Superfamily:   ThrRS/AlaRS common domain [ 55186] (2)
Families:   Threonyl-tRNA synthetase (ThrRS), second 'additional' domain [ 55187]
  AlaX-like [ 103051] (2)


Superfamily statistics
Genomes (3,183) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 8,759 18,755 6
Proteins 8,749 18,748 6


Functional annotation
General category Information
Detailed category Translation

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) biosynthetic process 6.504e-11 Least Informative Direct
Biological Process (BP) protein metabolic process 1.476e-10 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 1.256e-07 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 1.936e-07 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 5.673e-07 Least Informative Direct
Biological Process (BP) single-organism metabolic process 5.86e-07 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 7.735e-07 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 1.493e-06 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.2675 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.2295 Least Informative Inherited
Biological Process (BP) response to stimulus 1 Least Informative Inherited
Biological Process (BP) developmental process 0.1371 Least Informative Inherited
Biological Process (BP) regulation of metabolic process 0.1582 Least Informative Inherited
Biological Process (BP) single-organism cellular process 1 Least Informative Inherited
Biological Process (BP) cellular component organization or biogenesis 0.9637 Least Informative Inherited
Biological Process (BP) cellular amino acid metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 0 Moderately Informative Direct
Biological Process (BP) gene expression 1.773e-14 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 3.753e-11 Moderately Informative Direct
Biological Process (BP) regulation of protein metabolic process 5.678e-07 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 0.1957 Moderately Informative Inherited
Biological Process (BP) system process 0.07504 Moderately Informative Inherited
Biological Process (BP) response to oxygen-containing compound 0.03048 Moderately Informative Inherited
Biological Process (BP) regulation of programmed cell death 0.006852 Moderately Informative Inherited
Biological Process (BP) cellular response to stress 0.0557 Moderately Informative Inherited
Biological Process (BP) cellular response to chemical stimulus 0.1259 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.2357 Moderately Informative Inherited
Biological Process (BP) organ development 0.5911 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.02878 Moderately Informative Inherited
Biological Process (BP) response to endogenous stimulus 0.01475 Moderately Informative Inherited
Biological Process (BP) tissue development 0.08469 Moderately Informative Inherited
Biological Process (BP) organelle organization 0.1731 Moderately Informative Inherited
Biological Process (BP) response to organic substance 0.1867 Moderately Informative Inherited
Biological Process (BP) signal transduction 0.5027 Moderately Informative Inherited
Biological Process (BP) regulation of cellular biosynthetic process 0.00482 Moderately Informative Inherited
Biological Process (BP) regulation of gene expression 0.007482 Moderately Informative Inherited
Biological Process (BP) regulation of macromolecule biosynthetic process 0.002983 Moderately Informative Inherited
Biological Process (BP) ncRNA metabolic process 0 Informative Direct
Biological Process (BP) translation 0 Informative Direct
Biological Process (BP) posttranscriptional regulation of gene expression 9.13e-13 Informative Direct
Biological Process (BP) mitochondrion organization 7.069e-06 Informative Direct
Biological Process (BP) negative regulation of cell death 0.0002374 Informative Direct
Biological Process (BP) response to organonitrogen compound 0.0003349 Informative Direct
Biological Process (BP) RNA modification 0.0009008 Informative Direct
Biological Process (BP) central nervous system development 0.009239 Informative Inherited
Biological Process (BP) regulation of translation 0 Highly Informative Direct
Biological Process (BP) hair follicle development 4.644e-10 Highly Informative Direct
Biological Process (BP) response to acid 2.328e-09 Highly Informative Direct
Biological Process (BP) neuromuscular process 7.375e-09 Highly Informative Direct
Biological Process (BP) ER-nucleus signaling pathway 1.031e-08 Highly Informative Direct
Biological Process (BP) negative regulation of neuron death 2.27e-08 Highly Informative Direct
Biological Process (BP) response to topologically incorrect protein 1.544e-07 Highly Informative Direct
Biological Process (BP) regulation of neuron apoptotic process 2.071e-07 Highly Informative Direct
Biological Process (BP) response to endoplasmic reticulum stress 2.172e-07 Highly Informative Direct
Molecular Function (MF) hydrolase activity 0.62 Least Informative Inherited
Molecular Function (MF) hydrolase activity, acting on ester bonds 7.232e-08 Moderately Informative Direct
Molecular Function (MF) carboxylic ester hydrolase activity 0 Highly Informative Direct
Cellular Component (CC) cytoplasmic part 0.0003668 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.1996 Least Informative Inherited
Cellular Component (CC) plastid 9.465e-05 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)Alanine--tRNA ligase0Highly InformativeDirect
Enzyme Commission (EC)Threonine--tRNA ligase0Highly InformativeDirect

Document: EC annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)growth variant0Least InformativeDirect
Worm Phenotype (WP)larval development variant0Least InformativeDirect

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

Xenopus Anatomy (XA)

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XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)central nervous system0Least InformativeDirect
Xenopus ANatomical entity (XAN)male organism0Least InformativeDirect
Xenopus ANatomical entity (XAN)head0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least 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)guard cell0Least 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)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 functionMetal-binding0Least InformativeDirect
Molecular functionNucleotide-binding0Least InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionRNA-binding0Moderately InformativeDirect
Molecular functiontRNA-binding0InformativeDirect
Post-translational modificationLigase0Moderately InformativeDirect
Post-translational modificationAminoacyl-tRNA synthetase0InformativeDirect

Document: KW annotation of SCOP domains

Jump to [ Top of page · SCOP classification · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Worm Phenotype (WP) · Yeast Phenotype (YP) · 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 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 ThrRS/AlaRS common 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 ThrRS/AlaRS common 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 · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]