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Entry version 14 (12 Aug 2020)
Sequence version 1 (12 Apr 2017)
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Protein

DNA ligase

Gene

lig1

Organism
Salmo salar (Atlantic salmon)
Status
Unreviewed-Annotation score:

Annotation score:2 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%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

  • ATP + (deoxyribonucleotide)(n)-3'-hydroxyl + 5'-phospho-(deoxyribonucleotide)(m) = (deoxyribonucleotide)(n+m) + AMP + diphosphate.UniRule annotationARBA annotation EC:6.5.1.1

<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 functionLigaseUniRule annotationImportedARBA annotation
Biological processDNA damage, DNA recombinationUniRule annotation, DNA repairUniRule annotation, DNA replicationUniRule annotationARBA annotation
LigandATP-bindingUniRule annotationARBA annotation, Nucleotide-binding

<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 ligaseUniRule annotation (EC:6.5.1.1UniRule 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:lig1Imported
<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>OrganismiSalmo salar (Atlantic salmon)Imported
<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 identifieri8030 [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 lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiProtacanthopterygiiSalmoniformesSalmonidaeSalmoninaeSalmo
<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
  • UP000087266 <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: Genome assembly

<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

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini820 – 956DNA_LIGASE_A3InterPro annotationAdd BLAST137

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>Regioni1 – 443DisorderedSequence analysisAdd BLAST443

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes the position of regions of compositional bias within the protein and the particular amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi13 – 71PolyampholyteSequence analysisAdd BLAST59
Compositional biasi104 – 124PolarSequence analysisAdd BLAST21
Compositional biasi125 – 139Pro-richSequence analysisAdd BLAST15
Compositional biasi160 – 189PolyampholyteSequence analysisAdd BLAST30
Compositional biasi213 – 372PolyampholyteSequence analysisAdd BLAST160
Compositional biasi391 – 435PolyampholyteSequence analysisAdd BLAST45

<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 annotationARBA annotation

Phylogenomic databases

KEGG Orthology (KO)

More...
KOi
K10747

Database of Orthologous Groups

More...
OrthoDBi
274264at2759

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.10.3260.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
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>Sequence (1+)i

<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.

This entry has 1 described isoform and 1 potential isoform that is computationally mapped.Show allAlign All

A0A1S3M043-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MQRSISSFFQ PKTGKEKESK KCDGPVKDKP VKDKPEPVKR PLKVQNGVHK
60 70 80 90 100
EPDSPVKKFT KRSRQILDSD DDDEAQAPAG IEQEQEDKAV QPKDEVFKAV
110 120 130 140 150
TTPLSPASPV TPAASATPVT PSATPVTPAA SPTPGTPDTP TSISPSGIPK
160 170 180 190 200
RRTARKQFPK RKLDSRSGSE KEEEEQGPQN KRAKVEETQD STENEEETMD
210 220 230 240 250
VGGENSVDKP EVAQNNPEEK ETDEEKTKDG EKEKALDVKE TATEKAEEEK
260 270 280 290 300
GKSEKAKERS PKGQKVKERS PKERSPKGQK VKERSPKERS PKSQKVKERS
310 320 330 340 350
PKERSPKGQK VKERSPKERS PKGQKVKERS PKERSPKGQK VVKDDKEKGS
360 370 380 390 400
PKNERKAVKE GKDLKEEKVS ECPQATKAPT ISSFFAPRKA AVKMERPEKS
410 420 430 440 450
EGDGKEKSGE CIKEEATVSR TTEDVKDKKG EKTAQAQYDP SRPNYHPVDH
460 470 480 490 500
ACWRQGERVP YLAVARTFEK IEEDSGRLRN IETLSNLLRS VIVLSPEDLL
510 520 530 540 550
CCVYLCLNQL GPAYMGLELG VGETVLMKAV AQATGRQLDK IKAEAAEKGD
560 570 580 590 600
LGLVAESSRN NQRIMFQPAN LIAGGVFNKL KDIGNMSGNS AMNKKIDIIK
610 620 630 640 650
GLFVACRFSE ARYIVRSLAG KLRIGLAEQS VLSALSQAVC LTPPGQDFPP
660 670 680 690 700
AVIDAGKGMS AEKQKAWIEE KSLILKQTYC EMPNYDVIIP VILKEGIDQL
710 720 730 740 750
PNHCKLTPGV PLRPMLAHPT KGVGEVMKRF DEAAFTCEYK YDGERAQIHI
760 770 780 790 800
LENGEVRIFS RNQEDNTTKY PDIISRIPTV KNESVVSCVL DSEAVAWDRE
810 820 830 840 850
KKQIQPFQVL TTRKRKDVAA ADIKVQVCVY AFDLLYLNGE SLVKQSLSCR
860 870 880 890 900
RALLKESFQE KEGEFVFARA IDSDNTDAIA EFLEQSVRDS CEGLMVKTLE
910 920 930 940 950
KDATYEIAKR SHNWLKLKKD YLDGVGDTID LCVIGAYLGK GKRTGTYGGF
960 970 980 990 1000
LLACYDEDNE EFQSVCKIGT GFKDEDLEQH YKFLKEHILP KPRPYYRVDQ
1010 1020 1030 1040 1050
STEPDLWLDA VQVWEVKCAD LSLSPIYKAG MGLCDPEKGI SLRFPRFLRI
1060 1070 1080
RDDKKPEEAT SGGQIADLYR KQQVVQNQGD KADLEDYY
Length:1,088
Mass (Da):121,556
Last modified:April 12, 2017 - 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:i120DEECB50ACF59D
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A1S3M0T4A0A1S3M0T4_SALSA
DNA ligase
lig1
1,073Annotation score:

Annotation score:2 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>

Sequence databases

NCBI Reference Sequences

More...
RefSeqi
XP_013996548.1, XM_014141073.1

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...
Ensembli
ENSSSAT00000155005; ENSSSAP00000119683; ENSSSAG00000081183

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
106569579

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
sasa:106569579

<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

RefSeqiXP_013996548.1, XM_014141073.1

3D structure databases

Database of comparative protein structure models

More...
ModBasei
Search...

SWISS-MODEL Interactive Workspace

More...
SWISS-MODEL-Workspacei
Submit a new modelling project...

Genome annotation databases

EnsembliENSSSAT00000155005; ENSSSAP00000119683; ENSSSAG00000081183
GeneIDi106569579
KEGGisasa:106569579

Organism-specific databases

Comparative Toxicogenomics Database

More...
CTDi
3978

Phylogenomic databases

KOiK10747
OrthoDBi274264at2759

Family and domain databases

Gene3Di1.10.3260.10, 1 hit
InterProiView protein in InterPro
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

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 nameiA0A1S3M043_SALSA
<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: A0A1S3M043
<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/TrEMBL: April 12, 2017
Last sequence update: April 12, 2017
Last modified: August 12, 2020
This is version 14 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 statusiUnreviewed (UniProtKB/TrEMBL)

<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

Reference proteomeImported
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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