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UniProtKB - P56459 (SYDND_HELPY)

Entry version 133 (02 Dec 2020)
Sequence version 1 (15 Jul 1998)
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Protein

Aspartate--tRNA(Asp/Asn) ligase

Gene

aspS

Organism
Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
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

Aspartyl-tRNA synthetase with relaxed tRNA specificity since it is able to aspartylate not only its cognate tRNA(Asp) but also tRNA(Asn). Is 1.7 times more efficient at aminoacylating tRNA(Asp) over tRNA(Asn). Reaction proceeds in two steps: L-aspartate is first activated by ATP to form Asp-AMP and then transferred to the acceptor end of tRNA(Asp/Asn).1 Publication

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">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 describes biophysical and chemical properties, such as maximal absorption, kinetic parameters, pH dependence, redox potentials and temperature dependence.<p><a href='/help/biophysicochemical_properties' target='_top'>More...</a></p>Kineticsi

kcat is 0.022 sec(-1) for tRNA(Asp) aspartylation and 0.014 sec(-1) for tRNA(Asn) aspartylation.
  1. KM=0.77 µM for tRNA(Asp)1 Publication
  2. KM=0.83 µM for tRNA(Asn)1 Publication

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    <p>This subsection describes interesting single amino acid sites on the sequence that are not defined in any other subsection. This subsection can be displayed in different sections ('Function', 'PTM / Processing', 'Pathology and Biotech') according to its content.<p><a href='/help/site' target='_top'>More...</a></p>Sitei30Important for tRNA non-discriminationUniRule annotation1
    Sitei80Important for tRNA non-discriminationUniRule annotation1
    <p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">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 sitei171AspartateUniRule annotation1
    Binding sitei217AspartateUniRule annotation1
    Binding sitei226ATPUniRule annotation1
    Binding sitei444AspartateUniRule annotation1
    Binding sitei474ATPUniRule annotation1
    Binding sitei481AspartateUniRule annotation1

    Regions

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    <p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">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 bindingi217 – 219ATPUniRule annotation3
    Nucleotide bindingi526 – 529ATPUniRule annotation4

    <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, Nucleotide-binding

    Enzyme and pathway databases

    BioCyc Collection of Pathway/Genome Databases

    More...    BioCyci    		HPY:HP0617-MONOMER

    <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%5Fand%5Ftaxonomy%5Fsection">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:
    Aspartate--tRNA(Asp/Asn) ligaseUniRule annotation (EC:6.1.1.23UniRule annotation)
    Alternative name(s):
    Aspartyl-tRNA synthetaseUniRule annotation
    Short name:
    AspRSUniRule annotation
    Non-discriminating aspartyl-tRNA synthetaseUniRule annotation
    Short name:
    ND-AspRSUniRule annotation
    <p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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:aspSUniRule annotation
    Ordered Locus Names:HP_0617
    <p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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>OrganismiHelicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
    <p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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 identifieri85962 [NCBI]
    <p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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 › Epsilonproteobacteria › Campylobacterales › Helicobacteraceae › Helicobacter ›
    <p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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
    • UP000000429 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">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 provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    <p>This subsection of the <a href="http://www.uniprot.org/manual/pathology%5Fand%5Fbiotech%5Fsection">'Pathology and Biotech'</a> section describes the effect of the experimental mutation of one or more amino acid(s) on the biological properties of the protein.<p><a href='/help/mutagen' target='_top'>More...</a></p>Mutagenesisi81L → N: Enhances enzyme specificity for tRNA(Asp) over tRNA(Asn), by reducing enzyme's ability to misacylate tRNA(Asn). 1 Publication1
    Mutagenesisi86L → M: Enhances enzyme specificity for tRNA(Asp) over tRNA(Asn), by reducing enzyme's ability to misacylate tRNA(Asn). 1 Publication1

    <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 or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00001108831 – 577Aspartate--tRNA(Asp/Asn) ligaseAdd BLAST577

    Proteomic databases

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

    More...    PaxDbi    		P56459

    <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%5Fsection">'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%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

    Homodimer.

    UniRule annotation

    Protein-protein interaction databases

    Database of interacting proteins

    More...    DIPi    		DIP-3174N

    Protein interaction database and analysis system

    More...    IntActi    		P56459, 2 interactors

    Molecular INTeraction database

    More...    MINTi    		P56459

    STRING: functional protein association networks

    More...    STRINGi    		85962.C694_03190

    <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

    Secondary structure

    1577
    Legend: HelixTurnBeta strandPDB Structure known for this area
    Show more details

    3D structure databases

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

    More...    SMRi    		P56459

    Database of comparative protein structure models

    More...    ModBasei    		Search...

    Protein Data Bank in Europe - Knowledge Base

    More...    PDBe-KBi    		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

    Region

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    <p>This subsection of the 'Family and Domains' section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni195 – 198AspartateUniRule annotation4

    <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. Type 1 subfamily.UniRule annotation

    Phylogenomic databases

    evolutionary genealogy of genes: Non-supervised Orthologous Groups

    More...    eggNOGi    		COG0173, Bacteria

    Identification of Orthologs from Complete Genome Data

    More...    OMAi    		YQLDVEM

    Family and domain databases

    Gene3D Structural and Functional Annotation of Protein Families

    More...    Gene3Di    		3.30.1360.30, 1 hit

    HAMAP database of protein families

    More...    HAMAPi    		MF_00044, Asp_tRNA_synth_type1, 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
    IPR004524, Asp-tRNA-ligase_1
    IPR002312, Asp/Asn-tRNA-synth_IIb
    IPR004115, GAD-like_sf
    IPR029351, GAD_dom
    IPR012340, NA-bd_OB-fold
    IPR004365, NA-bd_OB_tRNA

    The PANTHER Classification System

    More...    PANTHERi    		PTHR22594:SF5, PTHR22594:SF5, 1 hit

    Pfam protein domain database

    More...    Pfami    		View protein in Pfam
    PF02938, GAD, 1 hit
    PF00152, tRNA-synt_2, 1 hit
    PF01336, tRNA_anti-codon, 1 hit

    Protein Motif fingerprint database; a protein domain database

    More...    PRINTSi    		PR01042, TRNASYNTHASP

    Superfamily database of structural and functional annotation

    More...    SUPFAMi    		SSF50249, SSF50249, 1 hit
    SSF55261, SSF55261, 1 hit

    TIGRFAMs; a protein family database

    More...    TIGRFAMsi    		TIGR00459, aspS_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%5Flength">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%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">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.

    P56459-1 [UniParc]FASTAAdd to basket
    « Hide
            10         20         30         40         50
    MRSHFCTEIS EKDVGKIVKV AGWCNTYRDH GGVVFIDLRD KSGLVQLVCD 
            60         70         80         90        100
    PSSKAYEKAL EVRSEFVLVA KGKVRLRGAG LENPKLKTGK IEIVLEELII 
           110        120        130        140        150
    ENKSATPPIE IGNKHVNEDL RLKYRYLDLR SPNSYEIFKL RSEVALITRN 
           160        170        180        190        200
    TLAQKGFLEI ETPILSKTTP EGARDYLVPS RVHEGEFFAL PQSPQLFKQL 
           210        220        230        240        250
    LMVGGMDRYF QIARCFRDED LRADRQPEFT QIDAEMSFCD ENDVMGVVED 
           260        270        280        290        300
    LLQEIFKAVG HTISKPFKRM PYKEAMENYG SDKPDLRFEL PLIEVGDCFR 
           310        320        330        340        350
    DSSNAIFSNT AKDPKNKRIK ALNVKGADAL FSRSVLKELE EFVRQFGAKG 
           360        370        380        390        400
    LAYLQIKEDE IKGPLVKFLS EKGLKNILER TDAQVGDIVF FGAGDKKIVL 
           410        420        430        440        450
    DYMGRLRLKV AETLDLIDKD ALNFLWVVNF PMFEKTENGY HAAHHPFTMP 
           460        470        480        490        500
    KNIECEDIEE VEAHAYDVVL NGVELGGGSI RIHKEEMQKK VFEKINIHEE 
           510        520        530        540        550
    EAQKKFGFLL EALKFGAPPH GGFAIGFDRL IMLMTKSHSI RDVIAFPKTQ 
           560        570 
    KASCLLTNAP SPINEEQLRE LHIRLRK
    Length:577
    Mass (Da):65,602
    Last modified:July 15, 1998 - 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:i29963C376EE9E68F
    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
    		AE000511 Genomic DNA Translation: AAD07682.1

    Protein sequence database of the Protein Information Resource

    More...    PIRi    		A64597

    NCBI Reference Sequences

    More...    RefSeqi    		NP_207412.1, NC_000915.1
    WP_001256425.1, NC_018939.1

    Genome annotation databases

    Ensembl bacterial and archaeal genome annotation project

    More...    EnsemblBacteriai    		AAD07682; AAD07682; HP_0617

    KEGG: Kyoto Encyclopedia of Genes and Genomes

    More...    KEGGi    		heo:C694_03190
    hpy:HP0617

    Pathosystems Resource Integration Center (PATRIC)

    More...    PATRICi    		fig|85962.47.peg.665

    <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
    		AE000511 Genomic DNA Translation: AAD07682.1
    PIRiA64597
    RefSeqiNP_207412.1, NC_000915.1
    WP_001256425.1, NC_018939.1

    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
    5GROX-ray2.00A/B1-104[»]
    SMRiP56459
    ModBaseiSearch...
    PDBe-KBiSearch...

    Protein-protein interaction databases

    DIPiDIP-3174N
    IntActiP56459, 2 interactors
    MINTiP56459
    STRINGi85962.C694_03190

    Proteomic databases

    PaxDbiP56459

    Genome annotation databases

    EnsemblBacteriaiAAD07682; AAD07682; HP_0617
    KEGGiheo:C694_03190
    hpy:HP0617
    PATRICifig|85962.47.peg.665

    Phylogenomic databases

    eggNOGiCOG0173, Bacteria
    OMAiYQLDVEM

    Enzyme and pathway databases

    BioCyciHPY:HP0617-MONOMER

    Family and domain databases

    Gene3Di3.30.1360.30, 1 hit
    HAMAPiMF_00044, Asp_tRNA_synth_type1, 1 hit
    InterProiView protein in InterPro
    IPR004364, Aa-tRNA-synt_II
    IPR006195, aa-tRNA-synth_II
    IPR004524, Asp-tRNA-ligase_1
    IPR002312, Asp/Asn-tRNA-synth_IIb
    IPR004115, GAD-like_sf
    IPR029351, GAD_dom
    IPR012340, NA-bd_OB-fold
    IPR004365, NA-bd_OB_tRNA
    PANTHERiPTHR22594:SF5, PTHR22594:SF5, 1 hit
    PfamiView protein in Pfam
    PF02938, GAD, 1 hit
    PF00152, tRNA-synt_2, 1 hit
    PF01336, tRNA_anti-codon, 1 hit
    PRINTSiPR01042, TRNASYNTHASP
    SUPFAMiSSF50249, SSF50249, 1 hit
    SSF55261, SSF55261, 1 hit
    TIGRFAMsiTIGR00459, aspS_bact, 1 hit
    PROSITEiView protein in PROSITE
    PS50862, AA_TRNA_LIGASE_II, 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 nameiSYDND_HELPY
    <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: P56459
    <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%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 15, 1998
    Last sequence update: July 15, 1998
    Last modified: December 2, 2020
    This is version 133 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

    3D-structure, Reference proteome

    Documents

    1. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    2. SIMILARITY comments
      Index of protein domains and families
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