SUPERFAMILY 1.75 HMM library and genome assignments server


Anticodon-binding domain of PheRS superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a+b) [ 53931] (376)
Fold:   Ferredoxin-like [ 54861] (59)
Superfamily:   Anticodon-binding domain of PheRS [ 54991]
Families:   Anticodon-binding domain of PheRS [ 54992]


Superfamily statistics
Genomes (2,941) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 3,100 16,533 2
Proteins 3,099 16,533 2


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 7.064e-10 Least Informative Direct
Biological Process (BP) protein metabolic process 0.0002089 Least Informative Direct
Biological Process (BP) single-organism metabolic process 0.00021 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.004023 Least Informative Inherited
Biological Process (BP) heterocycle metabolic process 0.002215 Least Informative Inherited
Biological Process (BP) cellular macromolecule metabolic process 0.004253 Least Informative Inherited
Biological Process (BP) cellular aromatic compound metabolic process 0.002599 Least Informative Inherited
Biological Process (BP) organic cyclic compound metabolic process 0.003937 Least Informative Inherited
Biological Process (BP) gene expression 1.133e-11 Moderately Informative Direct
Biological Process (BP) cellular amino acid metabolic process 2.094e-09 Moderately Informative Direct
Biological Process (BP) cellular macromolecule biosynthetic process 4.15e-07 Moderately Informative Direct
Biological Process (BP) RNA metabolic process 1.357e-05 Moderately Informative Direct
Biological Process (BP) ncRNA metabolic process 0 Informative Direct
Molecular Function (MF) binding 0.2542 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 0.000176 Moderately Informative Direct
Molecular Function (MF) RNA binding 5.892e-07 Informative Direct
Cellular Component (CC) cytoplasmic part 0.007634 Least Informative Inherited
Cellular Component (CC) intracellular membrane-bounded organelle 0.03349 Least 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)Ligases forming aminoacyl-tRNA and related compoun0Moderately InformativeDirect
Enzyme Commission (EC)Phenylalanine--tRNA ligase0InformativeDirect

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
Enzyme Commission (EC)Phenylalanine--tRNA ligase0Highly InformativeDirect

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 functionATP-binding0Moderately InformativeDirect
Molecular functionMagnesium0Moderately InformativeDirect
Molecular functionRNA-binding0Moderately InformativeDirect
Molecular functiontRNA-binding0InformativeDirect
Post-translational modificationLigase0Moderately InformativeDirect
Post-translational modificationAminoacyl-tRNA synthetase0InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR005121 SSF54991 Protein matches
Abstract

This is the anticodon binding domain found in some phenylalanyl tRNA synthetases. The domain has a ferredoxin fold, consisting of an alpha+beta sandwich with anti-parallel beta-sheets (beta-alpha-beta x2) [PubMed10447505, PubMed9016717].


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) · 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 1 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 Anticodon-binding domain of PheRS 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 1 hidden Markov models representing the Anticodon-binding domain of PheRS 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) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]