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Q6C8A3

- DNLI4_YARLI

UniProt

Q6C8A3 - DNLI4_YARLI

Protein

DNA ligase 4

Gene

LIG4

Organism
Yarrowia lipolytica (strain CLIB 122 / E 150) (Yeast) (Candida lipolytica)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 70 (01 Oct 2014)
      Sequence version 1 (16 Aug 2004)
      Previous versions | rss
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    Functioni

    Involved in ds DNA break repair. Has a role in non-homologous integration (NHI) pathways where it is required in the final step of non-homologus end-joining By similarity.By similarity

    Catalytic activityi

    ATP + (deoxyribonucleotide)(n) + (deoxyribonucleotide)(m) = AMP + diphosphate + (deoxyribonucleotide)(n+m).

    Cofactori

    Magnesium.By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei307 – 3071ATPBy similarity
    Active sitei309 – 3091N6-AMP-lysine intermediateBy similarity
    Binding sitei314 – 3141ATPBy similarity
    Binding sitei331 – 3311ATPBy similarity
    Metal bindingi371 – 3711Magnesium 1Sequence Analysis
    Metal bindingi476 – 4761Magnesium 2Sequence Analysis
    Binding sitei481 – 4811ATPBy similarity
    Binding sitei492 – 4921ATPBy similarity
    Binding sitei498 – 4981ATPBy similarity

    GO - Molecular functioni

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

    GO - Biological processi

    1. DNA recombination Source: UniProtKB-KW
    2. DNA repair Source: UniProtKB-KW
    3. DNA replication Source: UniProtKB-KW

    Keywords - Molecular functioni

    Ligase

    Keywords - Biological processi

    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 4 (EC:6.5.1.1)
    Alternative name(s):
    DNA ligase IV
    Polydeoxyribonucleotide synthase [ATP] 4
    Gene namesi
    Name:LIG4
    Ordered Locus Names:YALI0D21384g
    OrganismiYarrowia lipolytica (strain CLIB 122 / E 150) (Yeast) (Candida lipolytica)
    Taxonomic identifieri284591 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesDipodascaceaeYarrowia
    ProteomesiUP000001300: Chromosome D

    Subcellular locationi

    Nucleus By similarity

    GO - Cellular componenti

    1. nucleus Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 956956DNA ligase 4PRO_0000278386Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi4952.Q6C8A3.

    Structurei

    3D structure databases

    ProteinModelPortaliQ6C8A3.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini700 – 79394BRCT 1PROSITE-ProRule annotationAdd
    BLAST
    Domaini857 – 956100BRCT 2PROSITE-ProRule annotationAdd
    BLAST

    Sequence similaritiesi

    Belongs to the ATP-dependent DNA ligase family.Curated
    Contains 2 BRCT domains.PROSITE-ProRule annotation

    Keywords - Domaini

    Repeat

    Phylogenomic databases

    eggNOGiCOG1793.
    HOGENOMiHOG000176213.
    KOiK10777.
    OMAiKMDGDRM.
    OrthoDBiEOG7QC84G.

    Family and domain databases

    Gene3Di2.40.50.140. 1 hit.
    3.40.50.10190. 1 hit.
    InterProiIPR001357. BRCT_dom.
    IPR000977. DNA_ligase_ATP-dep.
    IPR012309. DNA_ligase_ATP-dep_C.
    IPR012310. DNA_ligase_ATP-dep_cent.
    IPR012308. DNA_ligase_ATP-dep_N.
    IPR012340. NA-bd_OB-fold.
    [Graphical view]
    PfamiPF00533. BRCT. 1 hit.
    PF04679. DNA_ligase_A_C. 1 hit.
    PF01068. DNA_ligase_A_M. 1 hit.
    PF04675. DNA_ligase_A_N. 1 hit.
    [Graphical view]
    SMARTiSM00292. BRCT. 2 hits.
    [Graphical view]
    SUPFAMiSSF50249. SSF50249. 1 hit.
    SSF52113. SSF52113. 1 hit.
    TIGRFAMsiTIGR00574. dnl1. 1 hit.
    PROSITEiPS50172. BRCT. 2 hits.
    PS50160. DNA_LIGASE_A3. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q6C8A3-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSSERRPELE ETAVDPATGS AASRKFSIVQ DAVETTIVAP TNHGPSPRFS    50
    TLVRNLFEPL VNLSAVVAAL RKKPTEAKAH IASQFIKGWV EEVGKDIYPA 100
    FRLILPDKDR ERAVYGLKEK ALGRLWVKVL NLAKDSPDAK ALSEWKQGGN 150
    ESAGNFSKRC YEVLSKRTSL TDYGHMTVDE VNERLDLLAD GETDQAKQIE 200
    ILTYFYKHMN ATELKWLVNI ILRQMKMNAT EKVFFEPWHP DAESLFNVTA 250
    SLKRVCWELT DPTKRLTSAE AQVSLFACFM PQIAAFPKYS GQDIAGKHFK 300
    GRPFYIEEKI DGERMQMHMS EYGNKFHWWS RRSKDFTETY GNSLDDASGS 350
    LTKRLRGIIN PKVRNCVLDG EMVAYDPATK KIIPFGTLRT ANRNEQNDLN 400
    LTKPMFMVFD ILLLNDKPLV DYTLAERKRT LRTIFARTDN ETVGQEGVLE 450
    VLPYTEATTA AEIETCMRKI IAESSEGLVI KDPTSVYRVN TRDDSWLKMK 500
    PEYMSEFGEK LDVVIIGGYY GSGKRGSILS SYLCGLRADG SDQFWSFFKV 550
    GGGLTAGDYQ AIRTKTEGKW KRWDKNDKPK NVLLAGPNGD LERPDVWIEP 600
    SDSVVVEVKA ASVVASDQYK VGLCLRFPRF RALRLDKTWE DGLTISQFAE 650
    LRQTVEMEAE NKELELEDRK RRNAGPGRGA KRLKLANVSS DEDELGTDER 700
    PTSVFKATSF AVLSDMSSPR YMSKAAVENL IKKHGGTVFQ TVEGPHTIPV 750
    ADTRTIKVQA LTKRVHGVDV IRPNWLLDCI NEEKLVALEP RNLLESSAET 800
    LALAKTNVDE FGDSYTRPLT YKEMQEVLRF MDQFDLDQTN PPDLMMEVLE 850
    TNDGAVPKGM LFYGKKVYMS TSNMDTVALE TQFRAYDALR CLQFGGANLV 900
    TDMKDLVVAV AKTEEEAKEL RRVSSEQVFP FRVVSIKWVE ESWKNGTVEI 950
    EDDYPL 956
    Length:956
    Mass (Da):108,061
    Last modified:August 16, 2004 - v1
    Checksum:i5169CFB807F4183B
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CR382130 Genomic DNA. Translation: CAG81303.1.
    RefSeqiXP_503109.1. XM_503109.1.

    Genome annotation databases

    EnsemblFungiiCAG81303; CAG81303; YALI0_D21384g.
    GeneIDi2911076.
    KEGGiyli:YALI0D21384g.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CR382130 Genomic DNA. Translation: CAG81303.1 .
    RefSeqi XP_503109.1. XM_503109.1.

    3D structure databases

    ProteinModelPortali Q6C8A3.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 4952.Q6C8A3.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii CAG81303 ; CAG81303 ; YALI0_D21384g .
    GeneIDi 2911076.
    KEGGi yli:YALI0D21384g.

    Phylogenomic databases

    eggNOGi COG1793.
    HOGENOMi HOG000176213.
    KOi K10777.
    OMAi KMDGDRM.
    OrthoDBi EOG7QC84G.

    Family and domain databases

    Gene3Di 2.40.50.140. 1 hit.
    3.40.50.10190. 1 hit.
    InterProi IPR001357. BRCT_dom.
    IPR000977. DNA_ligase_ATP-dep.
    IPR012309. DNA_ligase_ATP-dep_C.
    IPR012310. DNA_ligase_ATP-dep_cent.
    IPR012308. DNA_ligase_ATP-dep_N.
    IPR012340. NA-bd_OB-fold.
    [Graphical view ]
    Pfami PF00533. BRCT. 1 hit.
    PF04679. DNA_ligase_A_C. 1 hit.
    PF01068. DNA_ligase_A_M. 1 hit.
    PF04675. DNA_ligase_A_N. 1 hit.
    [Graphical view ]
    SMARTi SM00292. BRCT. 2 hits.
    [Graphical view ]
    SUPFAMi SSF50249. SSF50249. 1 hit.
    SSF52113. SSF52113. 1 hit.
    TIGRFAMsi TIGR00574. dnl1. 1 hit.
    PROSITEi PS50172. BRCT. 2 hits.
    PS50160. DNA_LIGASE_A3. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Entry informationi

    Entry nameiDNLI4_YARLI
    AccessioniPrimary (citable) accession number: Q6C8A3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 20, 2007
    Last sequence update: August 16, 2004
    Last modified: October 1, 2014
    This is version 70 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3