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UniProtKB - Q869E1 (DNLI1_DICDI)

Entry version 117 (02 Dec 2020)
Sequence version 1 (01 Jun 2003)
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Protein

DNA ligase 1

Gene

lig1

Organism
Dictyostelium discoideum (Slime mold)
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>-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

DNA ligase that seals nicks in double-stranded DNA during DNA replication, DNA recombination and DNA repair.By similarity

<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.PROSITE-ProRule annotation EC:6.5.1.1

<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 similarity

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 sitei842ATPBy similarity1
<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 sitei844N6-AMP-lysine intermediatePROSITE-ProRule annotation1
Binding sitei849ATPBy similarity1
Binding sitei865ATPBy similarity1
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">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 bindingi897Magnesium 1By similarity1
Metal bindingi996Magnesium 2By similarity1
Binding sitei1001ATPBy similarity1
Binding sitei1014ATPBy similarity1
Binding sitei1020ATPBy 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 functionLigase
Biological processCell cycle, Cell division, DNA damage, DNA recombination, DNA repair, DNA replication
LigandATP-binding, Magnesium, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...Reactomei		R-DDI-110362, POLB-Dependent Long Patch Base Excision Repair
R-DDI-5358565, Mismatch repair (MMR) directed by MSH2:MSH6 (MutSalpha)
R-DDI-5358606, Mismatch repair (MMR) directed by MSH2:MSH3 (MutSbeta)
R-DDI-69183, Processive synthesis on the lagging strand

<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 ligase 1 (EC:6.5.1.1PROSITE-ProRule annotation)
Alternative name(s):
DNA ligase I
Polydeoxyribonucleotide synthase [ATP] 1
<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:lig1
ORF Names:DDB_G0274493
<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>OrganismiDictyostelium discoideum (Slime mold)
<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 identifieri44689 [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 lineageiEukaryota › Amoebozoa › Evosea › Eumycetozoa › Dictyostelia › Dictyosteliales › Dictyosteliaceae › Dictyostelium
<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
  • UP000002195 <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> Componentsi: Chromosome 2, Unassembled WGS sequence

Organism-specific databases

Dictyostelium discoideum online informatics resource

More...dictyBasei		DDB_G0274493, lig1

<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

Nucleus

<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_00003512141 – 1192DNA ligase 1Add BLAST1192

Proteomic databases

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

More...PaxDbi		Q869E1

PRoteomics IDEntifications database

More...PRIDEi		Q869E1

<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

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>Sitei580Interaction with target DNABy similarity1
Sitei866Interaction with target DNABy similarity1
Sitei1046Interaction with target DNABy similarity1
Sitei1071Interaction with target DNABy similarity1

Protein-protein interaction databases

STRING: functional protein association networks

More...STRINGi		44689.DDB0232265

<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		Q869E1

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

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>Regioni724 – 733Interaction with target DNABy similarity10
Regioni918 – 920Interaction with target DNABy similarity3

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 biasi11 – 468Lys-richAdd BLAST458
Compositional biasi13 – 512Glu-richAdd BLAST500
Compositional biasi171 – 201Asp-richAdd BLAST31
Compositional biasi395 – 425Thr-richAdd BLAST31

<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.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		KOG0967, Eukaryota

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		CLU_005138_0_1_1

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		Q869E1

Database for complete collections of gene phylogenies

More...PhylomeDBi		Q869E1

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>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.

Q869E1-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MQSSMWSFLQ KKEGGEIEDI EKKISNAQEL NKLKTSPKKK REAVVKEKVE 
        60         70         80         90        100
KKEKKETKPK RKSSKKNKEE EEEEEQEEQD GEEEQEEEEE YQQQDEEIEE 
       110        120        130        140        150
DINGEEEMEL DENEKEKNKK KKQSLKTKEN KESKSSSSSK KTIENKETKK 
       160        170        180        190        200
PEKQSSKQSN NLKRLKRKKM DDDEEDEEDE NKTDDNDLDD MLDDDSDNEK 
       210        220        230        240        250
DSISSKDKEY KEKVLKDKEK KEKEKKEKEL KEKESKEKEK KEKEKKEKEE 
       260        270        280        290        300
KDKKEKELKE KELKEKELKD KKEKELKEKE KELKDKEKKE KELKEKEKKE 
       310        320        330        340        350
KEEKEKEKKE KKEKELKEKE EKEKKEKELK EKELKEKELK EKELKEKELT 
       360        370        380        390        400
SPKKETIDIS DLFKRANAEA KSSVPTSTSK NSKTNKKQKV DHKPTATTKK 
       410        420        430        440        450
PSPVLEAKQS TTTTTTTTTT STATTISSKS ISSPSKKEEK EVITSKKQVE 
       460        470        480        490        500
ATKVEVKKEK EKEKEKEKED DEEEEEEEED DDEKLEDIDE EEYEEEEEED 
       510        520        530        540        550
EEGISENEEE EEKKSTQIKS KFIKKVPISK KKGNAKTIQA DLKVIGKYRP 
       560        570        580        590        600
IEDAQWKKGE AVPYMVLAKT FEMMESTSSR LIIIEHLANL FRSIMLLSPK 
       610        620        630        640        650
DLVMTIYLSI NKIGPSYQSK ELGIGEHVLI KSLAESTGRS VDVIKQELTE 
       660        670        680        690        700
VGDLGIIAQN SRSTQTLMGK PTPLTIQSVF KTFQQIADLS GTGGQQKKKD 
       710        720        730        740        750
LIKKLLVSCK DCETLYIIRS LQGKLRIGLA ERSVLMALAK SVLVTPPIDG 
       760        770        780        790        800
SGQQIFDIRK QMKQEEFEER YQNVVSKVTR AYSQLPNYDL FVPHLIAVNG 
       810        820        830        840        850
IDNILSTCSL KVGIPVKPML AQPTTGISQM LDRFSDMEFT CEFKYDGERA 
       860        870        880        890        900
QIHRLPDGTT HIYTRNLEDY TQKYPDIVAN VTKFVGPNVK SFILDCEAVA 
       910        920        930        940        950
FDAATKKILS FQVLSTRARK SVQLSQIKVP VCVFAFDLLY LNGQSLIDEP 
       960        970        980        990       1000
LIKRREHLVE NFIASDGVFA FAKYSNISDV NDIQSYLEEA VEGNCEGLMV 
      1010       1020       1030       1040       1050
KTLKEKSIYE PSRRSYNWLK IKKDYMQGMT DSLDLVPIGA WYGKGKRTGT 
      1060       1070       1080       1090       1100
YGAYLLACYD ENNEEFQTLC KIGTGFSDEQ LTTFTSQLKP HLINQPRNQF 
      1110       1120       1130       1140       1150
RFSDSIKPDV WFSPSCVWEV LAADLSISPV HTAASGILDP NKGIALRFPR 
      1160       1170       1180       1190 
FIRIRPDKSP EDATSSDQVV DMYQNQKINS QSSKINEKDE DY
Length:1,192
Mass (Da):137,514
Last modified:June 1, 2003 - 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:iB52A5842CD779766
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
AAFI02000012 Genomic DNA Translation: EAL70139.1

NCBI Reference Sequences

More...RefSeqi		XP_644124.1, XM_639032.1

Genome annotation databases

Ensembl protists genome annotation project

More...EnsemblProtistsi		EAL70139; EAL70139; DDB_G0274493

Database of genes from NCBI RefSeq genomes

More...GeneIDi		8619554

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		ddi:DDB_G0274493

<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
AAFI02000012 Genomic DNA Translation: EAL70139.1
RefSeqiXP_644124.1, XM_639032.1

3D structure databases

SMRiQ869E1
ModBaseiSearch...

Protein-protein interaction databases

STRINGi44689.DDB0232265

Proteomic databases

PaxDbiQ869E1
PRIDEiQ869E1

Genome annotation databases

EnsemblProtistsiEAL70139; EAL70139; DDB_G0274493
GeneIDi8619554
KEGGiddi:DDB_G0274493

Organism-specific databases

dictyBaseiDDB_G0274493, lig1

Phylogenomic databases

eggNOGiKOG0967, Eukaryota
HOGENOMiCLU_005138_0_1_1
InParanoidiQ869E1
PhylomeDBiQ869E1

Enzyme and pathway databases

ReactomeiR-DDI-110362, POLB-Dependent Long Patch Base Excision Repair
R-DDI-5358565, Mismatch repair (MMR) directed by MSH2:MSH6 (MutSalpha)
R-DDI-5358606, Mismatch repair (MMR) directed by MSH2:MSH3 (MutSbeta)
R-DDI-69183, Processive synthesis on the lagging strand

Miscellaneous databases

Protein Ontology

More...PROi		PR:Q869E1

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 nameiDNLI1_DICDI
<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: Q869E1
Secondary accession number(s): Q556E8
<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: September 23, 2008
Last sequence update: June 1, 2003
Last modified: December 2, 2020
This is version 117 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)

<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 proteome

Documents

  1. Dictyostelium discoideum
    Dictyostelium discoideum: entries, gene names and cross-references to dictyBase
  2. SIMILARITY comments
    Index of protein domains and families
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