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UniProtKB - P00954 (SYW_ECOLI)

Entry version 159 (08 May 2019)
Sequence version 3 (29 Aug 2003)
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Protein

Tryptophan--tRNA ligase

Gene

trpS

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score:

Annotation score:4 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Catalyzes the attachment of tryptophan to tRNA(Trp). Amino acylates tRNA(Trp) with both L- and D-tryptophan, although D-tryptophan is a poor substrate (PubMed:10918062).UniRule annotation1 Publication

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes the interaction between a single amino acid and another chemical entity. Priority is given to the annotation of physiological ligands.<p><a href='/help/binding' target='_top'>More...</a></p>Binding sitei135L-tryptophanUniRule annotation1
Binding sitei186ATP; via amide nitrogen and carbonyl oxygenUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes a region in the protein which binds nucleotide phosphates. It always involves more than one amino acid and includes all residues involved in nucleotide-binding.<p><a href='/help/np_bind' target='_top'>More...</a></p>Nucleotide bindingi11 – 13ATPUniRule annotation3
Nucleotide bindingi19 – 20ATPUniRule annotation2
Nucleotide bindingi147 – 149ATPUniRule annotation3
Nucleotide bindingi195 – 199ATPUniRule annotation5

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

Complete GO annotation on QuickGO ...

GO - Biological processi

  • tryptophanyl-tRNA aminoacylation Source: EcoCyc
Complete GO annotation on QuickGO ...

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionAminoacyl-tRNA synthetase, Ligase
Biological processProtein biosynthesis
LigandATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...BioCyci		EcoCyc:TRPS-MONOMER
ECOL316407:JW3347-MONOMER
MetaCyc:TRPS-MONOMER

SABIO-RK: Biochemical Reaction Kinetics Database

More...SABIO-RKi		P00954

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Tryptophan--tRNA ligaseUniRule annotation (EC:6.1.1.2UniRule annotation1 Publication)
Alternative name(s):
Tryptophanyl-tRNA synthetaseUniRule annotation
Short name:
TrpRSUniRule annotation
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:trpSUniRule annotation
Ordered Locus Names:b3384, JW3347
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiEscherichia coli (strain K12)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri83333 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiBacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia ›
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000000318 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

Escherichia coli strain K12 genome database

More...EcoGenei		EG11030 trpS

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

GO - Cellular componenti

Complete GO annotation on QuickGO ...

Keywords - Cellular componenti

Cytoplasm

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00001366281 – 334Tryptophan--tRNA ligaseAdd BLAST334

Proteomic databases

Encyclopedia of Proteome Dynamics

More...EPDi		P00954

jPOST - Japan Proteome Standard Repository/Database

More...jPOSTi		P00954

PaxDb, a database of protein abundance averages across all three domains of life

More...PaxDbi		P00954

PRoteomics IDEntifications database

More...PRIDEi		P00954

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Homodimer.

UniRule annotation

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

More...BioGridi		4259293, 179 interactors

Database of interacting proteins

More...DIPi		DIP-11042N

Protein interaction database and analysis system

More...IntActi		P00954, 12 interactors

STRING: functional protein association networks

More...STRINGi		511145.b3384

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...SMRi		P00954

Database of comparative protein structure models

More...ModBasei		Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes a short (usually not more than 20 amino acids) conserved sequence motif of biological significance.<p><a href='/help/motif' target='_top'>More...</a></p>Motifi12 – 20"HIGH" regionUniRule annotation9
Motifi195 – 199"KMSKS" regionUniRule annotation5

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the class-I aminoacyl-tRNA synthetase family.UniRule annotation

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		ENOG4105C31 Bacteria
COG0180 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		HOG000059940

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		P00954

KEGG Orthology (KO)

More...KOi		K01867

Database for complete collections of gene phylogenies

More...PhylomeDBi		P00954

Family and domain databases

Conserved Domains Database

More...CDDi		cd00806 TrpRS_core, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		3.40.50.620, 1 hit

HAMAP database of protein families

More...HAMAPi		MF_00140_B Trp_tRNA_synth_B, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR001412 aa-tRNA-synth_I_CS
IPR002305 aa-tRNA-synth_Ic
IPR014729 Rossmann-like_a/b/a_fold
IPR002306 Trp-tRNA-ligase
IPR024109 Trp-tRNA-ligase_bac-type

Pfam protein domain database

More...Pfami		View protein in Pfam
PF00579 tRNA-synt_1b, 1 hit

Protein Motif fingerprint database; a protein domain database

More...PRINTSi		PR01039 TRNASYNTHTRP

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR00233 trpS, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS00178 AA_TRNA_LIGASE_I, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

P00954-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MTKPIVFSGA QPSGELTIGN YMGALRQWVN MQDDYHCIYC IVDQHAITVR 
        60         70         80         90        100
QDAQKLRKAT LDTLALYLAC GIDPEKSTIF VQSHVPEHAQ LGWALNCYTY 
       110        120        130        140        150
FGELSRMTQF KDKSARYAEN INAGLFDYPV LMAADILLYQ TNLVPVGEDQ 
       160        170        180        190        200
KQHLELSRDI AQRFNALYGE IFKVPEPFIP KSGARVMSLL EPTKKMSKSD 
       210        220        230        240        250
DNRNNVIGLL EDPKSVVKKI KRAVTDSDEP PVVRYDVQNK AGVSNLLDIL 
       260        270        280        290        300
SAVTGQSIPE LEKQFEGKMY GHLKGEVADA VSGMLTELQE RYHRFRNDEA 
       310        320        330 
FLQQVMKDGA EKASAHASRT LKAVYEAIGF VAKP
Length:334
Mass (Da):37,438
Last modified:August 29, 2003 - v3
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iCBAC73ABB8406026
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti30N → K in CAA23670 (PubMed:7042706).Curated1
Sequence conflicti30N → K in CAA79669 (PubMed:7603433).Curated1
Sequence conflicti326E → Q in CAA23670 (PubMed:7042706).Curated1
Sequence conflicti326E → Q in CAA79669 (PubMed:7603433).Curated1
Sequence conflicti334P → R in CAA23670 (PubMed:7042706).Curated1
Sequence conflicti334P → R in CAA79669 (PubMed:7603433).Curated1
Sequence conflicti334P → R in AAA92300 (PubMed:8555191).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section describes natural variant(s) of the protein sequence.<p><a href='/help/variant' target='_top'>More...</a></p>Natural varianti60T → R in TRPS567C; reduced activity, thermolabile. 1
Natural varianti91L → F in TRPS10330; reduced activity. 1
Natural varianti112D → E in TRPS9969; no effect in activity. 1
Natural varianti129P → S in TRPS9969; reduced activity. 1
Natural varianti133A → E in TRPS42C; reduced activity. 1
Natural varianti196M → I in TRPS271C; activity largely reduced. 1
Natural varianti329G → S in TRPS4040; reduced activity. 1

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...EMBLi

GenBank nucleotide sequence database

More...GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...DDBJi
Links Updated
V00371 Genomic DNA Translation: CAA23670.1
Z19601 Genomic DNA Translation: CAA79669.1
U38647 Genomic DNA Translation: AAA92300.1
U18997 Genomic DNA Translation: AAA58181.1
U00096 Genomic DNA Translation: AAC76409.1
AP009048 Genomic DNA Translation: BAE77907.1

Protein sequence database of the Protein Information Resource

More...PIRi		C65133 YWEC

NCBI Reference Sequences

More...RefSeqi		NP_417843.1, NC_000913.3
WP_000165552.1, NZ_LN832404.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...EnsemblBacteriai		AAC76409; AAC76409; b3384
BAE77907; BAE77907; BAE77907

Database of genes from NCBI RefSeq genomes

More...GeneIDi		947894

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		ecj:JW3347
eco:b3384

Pathosystems Resource Integration Center (PATRIC)

More...PATRICi		fig|1411691.4.peg.3346

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
V00371 Genomic DNA Translation: CAA23670.1
Z19601 Genomic DNA Translation: CAA79669.1
U38647 Genomic DNA Translation: AAA92300.1
U18997 Genomic DNA Translation: AAA58181.1
U00096 Genomic DNA Translation: AAC76409.1
AP009048 Genomic DNA Translation: BAE77907.1
PIRiC65133 YWEC
RefSeqiNP_417843.1, NC_000913.3
WP_000165552.1, NZ_LN832404.1

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...PDBei

Protein Data Bank RCSB

More...RCSB PDBi

Protein Data Bank Japan

More...PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5V0IX-ray1.90A/B1-334[»]
SMRiP00954
ModBaseiSearch...

Protein-protein interaction databases

BioGridi4259293, 179 interactors
DIPiDIP-11042N
IntActiP00954, 12 interactors
STRINGi511145.b3384

Proteomic databases

EPDiP00954
jPOSTiP00954
PaxDbiP00954
PRIDEiP00954

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC76409; AAC76409; b3384
BAE77907; BAE77907; BAE77907
GeneIDi947894
KEGGiecj:JW3347
eco:b3384
PATRICifig|1411691.4.peg.3346

Organism-specific databases

EchoBASE - an integrated post-genomic database for E. coli

More...EchoBASEi		EB1023
EcoGeneiEG11030 trpS

Phylogenomic databases

eggNOGiENOG4105C31 Bacteria
COG0180 LUCA
HOGENOMiHOG000059940
InParanoidiP00954
KOiK01867
PhylomeDBiP00954

Enzyme and pathway databases

BioCyciEcoCyc:TRPS-MONOMER
ECOL316407:JW3347-MONOMER
MetaCyc:TRPS-MONOMER
SABIO-RKiP00954

Miscellaneous databases

Protein Ontology

More...PROi		PR:P00954

Family and domain databases

CDDicd00806 TrpRS_core, 1 hit
Gene3Di3.40.50.620, 1 hit
HAMAPiMF_00140_B Trp_tRNA_synth_B, 1 hit
InterProiView protein in InterPro
IPR001412 aa-tRNA-synth_I_CS
IPR002305 aa-tRNA-synth_Ic
IPR014729 Rossmann-like_a/b/a_fold
IPR002306 Trp-tRNA-ligase
IPR024109 Trp-tRNA-ligase_bac-type
PfamiView protein in Pfam
PF00579 tRNA-synt_1b, 1 hit
PRINTSiPR01039 TRNASYNTHTRP
TIGRFAMsiTIGR00233 trpS, 1 hit
PROSITEiView protein in PROSITE
PS00178 AA_TRNA_LIGASE_I, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...ProtoNeti		Search...

MobiDB: a database of protein disorder and mobility annotations

More...MobiDBi		Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiSYW_ECOLI
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: P00954
Secondary accession number(s): Q2M749
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: August 29, 2003
Last modified: May 8, 2019
This is version 159 of the entry and version 3 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Aminoacyl-tRNA synthetases
    List of aminoacyl-tRNA synthetase entries
  4. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
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