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UniProtKB - P37477 (SYK_BACSU)

Entry version 143 (08 May 2019)
Sequence version 1 (01 Oct 1994)
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Protein

Lysine--tRNA ligase

Gene

lysS

Organism
Bacillus subtilis (strain 168)
Status
Reviewed-Annotation score:

Annotation score:3 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>-Protein inferred from homologyi <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

<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

<p>This subsection of the ‘Function’ section provides information relevant to cofactors. A cofactor is any non-protein substance required for a protein to be catalytically active. Some cofactors are inorganic, such as the metal atoms zinc, iron, and copper in various oxidation states. Others, such as most vitamins, are organic.<p><a href='/help/cofactor' target='_top'>More...</a></p>Cofactori

Mg2+By similarityNote: Binds 3 Mg2+ ions per subunit.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section indicates at which position the protein binds a given metal ion. The nature of the metal is indicated in the ‘Description’ field.<p><a href='/help/metal' target='_top'>More...</a></p>Metal bindingi410Magnesium 1By similarity1
Metal bindingi417Magnesium 1By similarity1
Metal bindingi417Magnesium 2By similarity1

<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

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, Magnesium, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...BioCyci		BSUB:BSU00820-MONOMER

SABIO-RK: Biochemical Reaction Kinetics Database

More...SABIO-RKi		P37477

<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:
Lysine--tRNA ligase (EC:6.1.1.6)
Alternative name(s):
Lysyl-tRNA synthetase
Short name:
LysRS
<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:lysS
Ordered Locus Names:BSU00820
<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>OrganismiBacillus subtilis (strain 168)
<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 identifieri224308 [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 › Firmicutes › Bacilli › Bacillales › Bacillaceae › Bacillus ›
<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
  • UP000001570 <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

<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_00001526001 – 499Lysine--tRNA ligaseAdd BLAST499

Proteomic databases

jPOST - Japan Proteome Standard Repository/Database

More...jPOSTi		P37477

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

More...PaxDbi		P37477

PRoteomics IDEntifications database

More...PRIDEi		P37477

<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.By similarity

Protein-protein interaction databases

Protein interaction database and analysis system

More...IntActi		P37477, 1 interactor

Molecular INTeraction database

More...MINTi		P37477

STRING: functional protein association networks

More...STRINGi		224308.BSU00820

<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		P37477

Database of comparative protein structure models

More...ModBasei		Search...

MobiDB: a database of protein disorder and mobility annotations

More...MobiDBi		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

<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-II aminoacyl-tRNA synthetase family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		ENOG4105CRK Bacteria
COG1190 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		HOG000236578

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		P37477

KEGG Orthology (KO)

More...KOi		K04567

Identification of Orthologs from Complete Genome Data

More...OMAi		EIFGEKC

Database for complete collections of gene phylogenies

More...PhylomeDBi		P37477

Family and domain databases

Conserved Domains Database

More...CDDi		cd00775 LysRS_core, 1 hit

HAMAP database of protein families

More...HAMAPi		MF_00252 Lys_tRNA_synth_class2, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR004364 aa-tRNA-synt_II
IPR006195 aa-tRNA-synth_II
IPR002313 Lys-tRNA-ligase_II
IPR034762 Lys-tRNA-ligase_II_bac/euk
IPR018149 Lys-tRNA-synth_II_C
IPR012340 NA-bd_OB-fold
IPR004365 NA-bd_OB_tRNA

Pfam protein domain database

More...Pfami		View protein in Pfam
PF00152 tRNA-synt_2, 1 hit
PF01336 tRNA_anti-codon, 1 hit

PIRSF; a whole-protein classification database

More...PIRSFi		PIRSF039101 LysRS2, 1 hit

Protein Motif fingerprint database; a protein domain database

More...PRINTSi		PR00982 TRNASYNTHLYS

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF50249 SSF50249, 1 hit

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR00499 lysS_bact, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS50862 AA_TRNA_LIGASE_II, 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.

P37477-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSQEEHNHEE LNDQLQVRRD KMNQLRDNGI DPFGARFERT HQSQEVISAY 
        60         70         80         90        100
QDLTKEELEE KAIEVTIAGR MMTKRGKGKA GFAHLQDLEG QIQIYVRKDS 
       110        120        130        140        150
VGDDQYEIFK SSDLGDLIGV TGKVFKTNVG ELSVKATSFE LLTKALRPLP 
       160        170        180        190        200
DKYHGLKDVE QRYRQRYLDL IVNPDSKHTF ITRSKIIQAM RRYLDDHGYL 
       210        220        230        240        250
EVETPTMHSI PGGASARPFI THHNALDIPL YMRIAIELHL KRLIVGGLEK 
       260        270        280        290        300
VYEIGRVFRN EGVSTRHNPE FTMIELYEAY ADYKDIMSLT ENLVAHIAQE 
       310        320        330        340        350
VLGTTTIQYG EEQIDLKPEW KRIHMVDAVK EATGVDFWEE VTVEQAREYA 
       360        370        380        390        400
KEHEVEIKDS MTVGHIINEF FEQKIEETLI QPTFIYGHPV EISPLAKKNP 
       410        420        430        440        450
EDPRFTDRFE LFIVGREHAN AFTELNDPID QRERFEAQLK EREAGNDEAH 
       460        470        480        490 
LMDEDFVEAL EYGMPPTGGL GIGIDRLVML LTNAPSIRDV LLFPQMRQR
Length:499
Mass (Da):57,539
Last modified:October 1, 1994 - v1
<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:i9D082E784473EFE3
GO

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
D26185 Genomic DNA Translation: BAA05316.1
AL009126 Genomic DNA Translation: CAB11858.1

Protein sequence database of the Protein Information Resource

More...PIRi		S66111

NCBI Reference Sequences

More...RefSeqi		NP_387963.1, NC_000964.3
WP_003242743.1, NZ_JNCM01000028.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...EnsemblBacteriai		CAB11858; CAB11858; BSU00820

Database of genes from NCBI RefSeq genomes

More...GeneIDi		936911

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		bsu:BSU00820

Pathosystems Resource Integration Center (PATRIC)

More...PATRICi		fig|224308.179.peg.82

<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
D26185 Genomic DNA Translation: BAA05316.1
AL009126 Genomic DNA Translation: CAB11858.1
PIRiS66111
RefSeqiNP_387963.1, NC_000964.3
WP_003242743.1, NZ_JNCM01000028.1

3D structure databases

SMRiP37477
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiP37477, 1 interactor
MINTiP37477
STRINGi224308.BSU00820

Proteomic databases

jPOSTiP37477
PaxDbiP37477
PRIDEiP37477

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAB11858; CAB11858; BSU00820
GeneIDi936911
KEGGibsu:BSU00820
PATRICifig|224308.179.peg.82

Phylogenomic databases

eggNOGiENOG4105CRK Bacteria
COG1190 LUCA
HOGENOMiHOG000236578
InParanoidiP37477
KOiK04567
OMAiEIFGEKC
PhylomeDBiP37477

Enzyme and pathway databases

BioCyciBSUB:BSU00820-MONOMER
SABIO-RKiP37477

Family and domain databases

CDDicd00775 LysRS_core, 1 hit
HAMAPiMF_00252 Lys_tRNA_synth_class2, 1 hit
InterProiView protein in InterPro
IPR004364 aa-tRNA-synt_II
IPR006195 aa-tRNA-synth_II
IPR002313 Lys-tRNA-ligase_II
IPR034762 Lys-tRNA-ligase_II_bac/euk
IPR018149 Lys-tRNA-synth_II_C
IPR012340 NA-bd_OB-fold
IPR004365 NA-bd_OB_tRNA
PfamiView protein in Pfam
PF00152 tRNA-synt_2, 1 hit
PF01336 tRNA_anti-codon, 1 hit
PIRSFiPIRSF039101 LysRS2, 1 hit
PRINTSiPR00982 TRNASYNTHLYS
SUPFAMiSSF50249 SSF50249, 1 hit
TIGRFAMsiTIGR00499 lysS_bact, 1 hit
PROSITEiView protein in PROSITE
PS50862 AA_TRNA_LIGASE_II, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...ProtoNeti		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 nameiSYK_BACSU
<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: P37477
<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: October 1, 1994
Last sequence update: October 1, 1994
Last modified: May 8, 2019
This is version 143 of the entry and version 1 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

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Aminoacyl-tRNA synthetases
    List of aminoacyl-tRNA synthetase entries
  3. Bacillus subtilis
    Bacillus subtilis (strain 168): entries, gene names and cross-references to SubtiList
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