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Entry version 87 (07 Apr 2021)
Sequence version 1 (01 Mar 2001)
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Protein

DNA ligase

Gene

lig

Organism
Thermococcus fumicolans
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

DNA ligase that seals nicks in double-stranded DNA during DNA replication, DNA recombination and DNA repair. Shows high activity with either ATP or NAD+.

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 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+UniRule annotation1 Publication

<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

  1. KM=1160 µM for ATP1 Publication
  2. KM=690 µM for NAD+1 Publication

    pH dependencei

    Optimum pH is 7.0.1 Publication

    Temperature dependencei

    Optimum temperature is 65 degrees Celsius. Loses half of its activity in 15 min at 90 degrees Celsius.1 Publication

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    <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 sitei247ATPUniRule annotation1
    <p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section is used for enzymes and indicates the residues directly involved in catalysis.<p><a href='/help/act_site' target='_top'>More...</a></p>Active sitei249N6-AMP-lysine intermediateUniRule annotation1
    Binding sitei254ATPUniRule annotation1
    Binding sitei269ATPUniRule annotation1
    Binding sitei299ATPUniRule annotation1
    Binding sitei339ATPUniRule annotation1
    Binding sitei414ATPUniRule annotation1
    Binding sitei420ATPUniRule annotation1

    <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

    GO - Biological processi

    <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 functionLigase
    Biological processCell cycle, Cell division, DNA damage, DNA recombination, DNA repair, DNA replication
    LigandATP-binding, Magnesium, Metal-binding, NAD, Nucleotide-binding

    Enzyme and pathway databases

    BRENDA Comprehensive Enzyme Information System

    More...
    BRENDAi
    6.5.1.6, 6299

    <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:
    DNA ligase1 PublicationUniRule annotation (EC:6.5.1.6UniRule annotation1 Publication)
    Alternative name(s):
    Polydeoxyribonucleotide synthase [ATP/NAD(+)]UniRule annotationCurated
    <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:ligUniRule annotation
    <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>OrganismiThermococcus fumicolans
    <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 identifieri46540 [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 lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaeThermococcus

    <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_00000596211 – 559DNA ligaseAdd BLAST559

    Proteomic databases

    PRoteomics IDEntifications database

    More...
    PRIDEi
    Q9HH07

    <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
    Q9HH07

    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

    <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 ATP-dependent DNA ligase family.UniRule annotationCurated

    Family and domain databases

    Gene3D Structural and Functional Annotation of Protein Families

    More...
    Gene3Di
    1.10.3260.10, 1 hit

    HAMAP database of protein families

    More...
    HAMAPi
    MF_00407, DNA_ligase, 1 hit

    Integrated resource of protein families, domains and functional sites

    More...
    InterProi
    View protein in InterPro
    IPR022865, DNA_ligae_ATP-dep_bac/arc
    IPR000977, DNA_ligase_ATP-dep
    IPR012309, DNA_ligase_ATP-dep_C
    IPR012310, DNA_ligase_ATP-dep_cent
    IPR016059, DNA_ligase_ATP-dep_CS
    IPR012308, DNA_ligase_ATP-dep_N
    IPR036599, DNA_ligase_N_sf
    IPR012340, NA-bd_OB-fold

    Pfam protein domain database

    More...
    Pfami
    View protein in Pfam
    PF04679, DNA_ligase_A_C, 1 hit
    PF01068, DNA_ligase_A_M, 1 hit
    PF04675, DNA_ligase_A_N, 1 hit

    Superfamily database of structural and functional annotation

    More...
    SUPFAMi
    SSF117018, SSF117018, 1 hit
    SSF50249, SSF50249, 1 hit

    TIGRFAMs; a protein family database

    More...
    TIGRFAMsi
    TIGR00574, dnl1, 1 hit

    PROSITE; a protein domain and family database

    More...
    PROSITEi
    View protein in PROSITE
    PS00697, DNA_LIGASE_A1, 1 hit
    PS00333, DNA_LIGASE_A2, 1 hit
    PS50160, DNA_LIGASE_A3, 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.

    Q9HH07-1 [UniParc]FASTAAdd to basket
    « Hide
            10         20         30         40         50
    MKYSELAGLY RRLEKTTLKT LKTRFVADFL KNVPDELLEI VPYLILGKVF
    60 70 80 90 100
    PDWDERELGV GEKLLIKAVS IATGVPEGEI ENSIKDTGDL GESIALAVKK
    110 120 130 140 150
    KKQKSFFSQP LTIKRVYDTF VKVAESQGEG SQDRKMKYLA NLFMDAQPEE
    160 170 180 190 200
    AKYIARTVLG TMRTGVAEGI LRDAIAEAFK VKAELVERAY MLTSDFGYVT
    210 220 230 240 250
    KVAKLEGNEG LSKVRIQVGK PVRPMLAQNA ASVKDALLEM GGEAAFEIKY
    260 270 280 290 300
    DGARVQVHKD GDRVVIYSRR LENVTRSIPE IVEAVRSQLR PEKAIVEGEL
    310 320 330 340 350
    VAVGDGGKPR PFQYVLRRFR RKYNIEEMIE RIPLELNLFD VLYVDGESLV
    360 370 380 390 400
    DTPFMERRKR LEEAVEESER IKLAQQLVTK KAEEAEEFYR RALELGHEGL
    410 420 430 440 450
    MAKRLDSVYE PGNRGKKWLK IKPTMEDLDL VIIGAEWGEG RRAHLLGSFL
    460 470 480 490 500
    VAAYDQHRGE FVPVGKVGSG FTDEDLAEFT KMLKPLIVRE EGKYVEIEPR
    510 520 530 540 550
    VVIQVTYQEI QKSPKYESGF ALRFPRYVAL REDKSPEEAD TIERISELYG

    LQERFKAKR
    Length:559
    Mass (Da):63,598
    Last modified:March 1, 2001 - 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:i173DCFF6FC0110BB
    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
    AJ133713 Genomic DNA Translation: CAC21199.1

    Genome annotation databases

    KEGG: Kyoto Encyclopedia of Genes and Genomes

    More...
    KEGGi
    ag:CAC21199

    <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
    AJ133713 Genomic DNA Translation: CAC21199.1

    3D structure databases

    SMRiQ9HH07
    ModBaseiSearch...

    Proteomic databases

    PRIDEiQ9HH07

    Genome annotation databases

    KEGGiag:CAC21199

    Enzyme and pathway databases

    BRENDAi6.5.1.6, 6299

    Family and domain databases

    Gene3Di1.10.3260.10, 1 hit
    HAMAPiMF_00407, DNA_ligase, 1 hit
    InterProiView protein in InterPro
    IPR022865, DNA_ligae_ATP-dep_bac/arc
    IPR000977, DNA_ligase_ATP-dep
    IPR012309, DNA_ligase_ATP-dep_C
    IPR012310, DNA_ligase_ATP-dep_cent
    IPR016059, DNA_ligase_ATP-dep_CS
    IPR012308, DNA_ligase_ATP-dep_N
    IPR036599, DNA_ligase_N_sf
    IPR012340, NA-bd_OB-fold
    PfamiView protein in Pfam
    PF04679, DNA_ligase_A_C, 1 hit
    PF01068, DNA_ligase_A_M, 1 hit
    PF04675, DNA_ligase_A_N, 1 hit
    SUPFAMiSSF117018, SSF117018, 1 hit
    SSF50249, SSF50249, 1 hit
    TIGRFAMsiTIGR00574, dnl1, 1 hit
    PROSITEiView protein in PROSITE
    PS00697, DNA_LIGASE_A1, 1 hit
    PS00333, DNA_LIGASE_A2, 1 hit
    PS50160, DNA_LIGASE_A3, 1 hit

    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 nameiDNLI_THEFM
    <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: Q9HH07
    <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: June 20, 2001
    Last sequence update: March 1, 2001
    Last modified: April 7, 2021
    This is version 87 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

    Documents

    1. SIMILARITY comments
      Index of protein domains and families
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