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Q27474

- DNLI1_CAEEL

UniProt

Q27474 - DNLI1_CAEEL

Protein

DNA ligase 1

Gene

lig-1

Organism
Caenorhabditis elegans
Status
Reviewed - Annotation score: 4 out of 5- Protein inferred from homologyi
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    • History
      Entry version 109 (01 Oct 2014)
      Sequence version 2 (24 May 2005)
      Previous versions | rss
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    Functioni

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

    Catalytic activityi

    ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m).PROSITE-ProRule annotation

    Cofactori

    Magnesium.By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sitei37 – 371Interaction with target DNABy similarity
    Binding sitei287 – 2871ATPBy similarity
    Active sitei289 – 2891N6-AMP-lysine intermediatePROSITE-ProRule annotation
    Binding sitei294 – 2941ATPBy similarity
    Binding sitei310 – 3101ATPBy similarity
    Sitei311 – 3111Interaction with target DNABy similarity
    Metal bindingi342 – 3421Magnesium 1By similarity
    Metal bindingi439 – 4391Magnesium 2By similarity
    Binding sitei444 – 4441ATPBy similarity
    Binding sitei457 – 4571ATPBy similarity
    Binding sitei463 – 4631ATPBy similarity
    Sitei489 – 4891Interaction with target DNABy similarity
    Sitei514 – 5141Interaction with target DNABy similarity

    GO - Molecular functioni

    1. ATP binding Source: UniProtKB-KW
    2. DNA binding Source: InterPro
    3. DNA ligase (ATP) activity Source: RefGenome
    4. metal ion binding Source: UniProtKB-KW

    GO - Biological processi

    1. cell cycle Source: UniProtKB-KW
    2. cell division Source: UniProtKB-KW
    3. DNA ligation Source: RefGenome
    4. DNA ligation involved in DNA repair Source: InterPro
    5. DNA recombination Source: UniProtKB-KW
    6. lagging strand elongation Source: RefGenome

    Keywords - Molecular functioni

    Ligase

    Keywords - Biological processi

    Cell cycle, Cell division, DNA damage, DNA recombination, DNA repair, DNA replication

    Keywords - Ligandi

    ATP-binding, Magnesium, Metal-binding, Nucleotide-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA ligase 1 (EC:6.5.1.1)
    Alternative name(s):
    DNA ligase I
    Polydeoxyribonucleotide synthase [ATP] 1
    Gene namesi
    Name:lig-1
    ORF Names:C29A12.3
    OrganismiCaenorhabditis elegans
    Taxonomic identifieri6239 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
    ProteomesiUP000001940: Chromosome V

    Organism-specific databases

    WormBaseiC29A12.3a; CE37480; WBGene00002985; lig-1.
    C29A12.3b; CE37481; WBGene00002985; lig-1.

    Subcellular locationi

    Nucleus By similarity

    GO - Cellular componenti

    1. chromosome Source: RefGenome
    2. mitochondrion Source: RefGenome
    3. nucleus Source: RefGenome

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 773773DNA ligase 1PRO_0000059583Add
    BLAST

    Proteomic databases

    PaxDbiQ27474.
    PRIDEiQ27474.

    Interactioni

    Protein-protein interaction databases

    STRINGi6239.C29A12.3a.

    Structurei

    3D structure databases

    ProteinModelPortaliQ27474.
    SMRiQ27474. Positions 13-619.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni180 – 18910Interaction with target DNABy similarity
    Regioni362 – 3643Interaction with target DNABy similarity

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi638 – 64811Poly-GluAdd
    BLAST
    Compositional biasi660 – 762103Lys-richAdd
    BLAST

    Sequence similaritiesi

    Belongs to the ATP-dependent DNA ligase family.Curated

    Phylogenomic databases

    eggNOGiCOG1793.
    GeneTreeiENSGT00750000117745.
    HOGENOMiHOG000036006.
    InParanoidiQ27474.
    KOiK10747.
    OMAiLDPSGYN.
    OrthoDBiEOG7RFTGN.
    PhylomeDBiQ27474.

    Family and domain databases

    Gene3Di1.10.3260.10. 1 hit.
    2.40.50.140. 1 hit.
    InterProiIPR000977. 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.
    IPR012340. NA-bd_OB-fold.
    [Graphical view]
    PfamiPF04679. DNA_ligase_A_C. 1 hit.
    PF01068. DNA_ligase_A_M. 1 hit.
    PF04675. DNA_ligase_A_N. 1 hit.
    [Graphical view]
    SUPFAMiSSF117018. SSF117018. 1 hit.
    SSF50249. SSF50249. 1 hit.
    TIGRFAMsiTIGR00574. dnl1. 1 hit.
    PROSITEiPS00697. DNA_LIGASE_A1. 1 hit.
    PS00333. DNA_LIGASE_A2. 1 hit.
    PS50160. DNA_LIGASE_A3. 1 hit.
    [Graphical view]

    Sequences (2)i

    Sequence statusi: Complete.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform a (identifier: Q27474-1) [UniParc]FASTAAdd to Basket

    This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

    « Hide

    MFFSKAGKAA VEWAKGSKVP YKEFALTLEK IEELSGKKKV DELAQFFTKV    50
    LDFSPDDLTA CVYMSVNQLG PSYEGLELGV AENSLIKAVA KATGRTEGKI 100
    KEDLRAKGDL GTVAQQSRSN QKMLAVPKAL TVPTVFNKLT EIAKLSGTSA 150
    MNKKVDAISA LLIACQGIEA RFLVRMLAGK MRIGLGEQSV LSALGHAFTL 200
    SKITDQKVRG DKLDSLKDAN VKRVKTAYCE CPNYNRLIEV ALTEGVEALV 250
    EKCKLSPGIP LKPMLAHPTK GIDEIMRRFR NQTMTCEWKY DGERGQIHKR 300
    EDGQIFIYSR NQENNTTKYP DIIEKISSCI GDGVTSFIVD AEVVAIDEAG 350
    LILPFQVLST RKRKNATDDN GVKVVVFLFD LLYFNGEPLV RKPLRKRREL 400
    LRTNFKKIDG SFYFATSVDT NDTDEINSFF DEAVQNKCEG LMIKTLDTEA 450
    TYEISRRSHS WLKMKKDYVD GVGDTLDLVV MGAYSGVGKR TGVYGGYLLG 500
    CYNPTTEEYE SVCKIGTGFT DEDLAEQYKI LQDKKIDKSP SYYQFDHTLK 550
    PDDTFSPYLV FEVKCADITI SPRHKAASGL TDDGKGISLR FPRFLRIRDD 600
    KNSDDATSSE QVLEMYKNQE AFANQKIEKA DAVDEDDEFE EKEDEEEELN 650
    MTNVSEGSSK ENPVKEEIKK ETPKSVSPKK FEKKPPVKSS PVNKSPVKSS 700
    PIKKEAEKKK GPVASIFSSS TKKNEKDVKV ESPSPIRKKK LPSDSDESDE 750
    ETSTNKKQPA KKRSRVAIDS DSD 773

    Note: No experimental confirmation available.

    Length:773
    Mass (Da):86,310
    Last modified:May 24, 2005 - v2
    Checksum:i458B676F9FCE0BA0
    GO
    Isoform b (identifier: Q27474-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         208-210: VRG → RMP
         211-773: Missing.

    Note: No experimental confirmation available.

    Show »
    Length:210
    Mass (Da):22,716
    Checksum:i7384B3AB04FDDF68
    GO

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei208 – 2103VRG → RMP in isoform b. CuratedVSP_013778
    Alternative sequencei211 – 773563Missing in isoform b. CuratedVSP_013779Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Z73970 Genomic DNA. Translation: CAA98242.2.
    Z73970 Genomic DNA. Translation: CAD44112.2.
    PIRiT19544.
    RefSeqiNP_741625.2. NM_171537.3. [Q27474-1]
    NP_741626.2. NM_171538.3. [Q27474-2]
    UniGeneiCel.23475.

    Genome annotation databases

    EnsemblMetazoaiC29A12.3a; C29A12.3a; WBGene00002985. [Q27474-1]
    GeneIDi179502.
    KEGGicel:CELE_C29A12.3.
    UCSCiC29A12.3a. c. elegans. [Q27474-1]

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Z73970 Genomic DNA. Translation: CAA98242.2 .
    Z73970 Genomic DNA. Translation: CAD44112.2 .
    PIRi T19544.
    RefSeqi NP_741625.2. NM_171537.3. [Q27474-1 ]
    NP_741626.2. NM_171538.3. [Q27474-2 ]
    UniGenei Cel.23475.

    3D structure databases

    ProteinModelPortali Q27474.
    SMRi Q27474. Positions 13-619.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 6239.C29A12.3a.

    Proteomic databases

    PaxDbi Q27474.
    PRIDEi Q27474.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblMetazoai C29A12.3a ; C29A12.3a ; WBGene00002985 . [Q27474-1 ]
    GeneIDi 179502.
    KEGGi cel:CELE_C29A12.3.
    UCSCi C29A12.3a. c. elegans. [Q27474-1 ]

    Organism-specific databases

    CTDi 179502.
    WormBasei C29A12.3a ; CE37480 ; WBGene00002985 ; lig-1.
    C29A12.3b ; CE37481 ; WBGene00002985 ; lig-1.

    Phylogenomic databases

    eggNOGi COG1793.
    GeneTreei ENSGT00750000117745.
    HOGENOMi HOG000036006.
    InParanoidi Q27474.
    KOi K10747.
    OMAi LDPSGYN.
    OrthoDBi EOG7RFTGN.
    PhylomeDBi Q27474.

    Miscellaneous databases

    NextBioi 905678.
    PROi Q27474.

    Family and domain databases

    Gene3Di 1.10.3260.10. 1 hit.
    2.40.50.140. 1 hit.
    InterProi 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.
    IPR012340. NA-bd_OB-fold.
    [Graphical view ]
    Pfami PF04679. DNA_ligase_A_C. 1 hit.
    PF01068. DNA_ligase_A_M. 1 hit.
    PF04675. DNA_ligase_A_N. 1 hit.
    [Graphical view ]
    SUPFAMi SSF117018. SSF117018. 1 hit.
    SSF50249. SSF50249. 1 hit.
    TIGRFAMsi TIGR00574. dnl1. 1 hit.
    PROSITEi PS00697. DNA_LIGASE_A1. 1 hit.
    PS00333. DNA_LIGASE_A2. 1 hit.
    PS50160. DNA_LIGASE_A3. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Genome sequence of the nematode C. elegans: a platform for investigating biology."
      The C. elegans sequencing consortium
      Science 282:2012-2018(1998) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], ALTERNATIVE SPLICING.
      Strain: Bristol N2.

    Entry informationi

    Entry nameiDNLI1_CAEEL
    AccessioniPrimary (citable) accession number: Q27474
    Secondary accession number(s): Q8MQB3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 1, 1997
    Last sequence update: May 24, 2005
    Last modified: October 1, 2014
    This is version 109 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programCaenorhabditis annotation project

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Caenorhabditis elegans
      Caenorhabditis elegans: entries, gene names and cross-references to WormBase
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3