ID   DNLJ_MIMIV              Reviewed;         636 AA.
AC   Q5UPZ0;
DT   13-SEP-2005, integrated into UniProtKB/Swiss-Prot.
DT   07-DEC-2004, sequence version 1.
DT   03-AUG-2022, entry version 70.
DE   RecName: Full=DNA ligase;
DE            EC=6.5.1.2;
DE   AltName: Full=NAD-dependent DNA ligase;
DE   AltName: Full=Polydeoxyribonucleotide synthase [NAD(+)];
GN   OrderedLocusNames=MIMI_R303;
OS   Acanthamoeba polyphaga mimivirus (APMV).
OC   Viruses; Varidnaviria; Bamfordvirae; Nucleocytoviricota; Megaviricetes;
OC   Imitervirales; Mimiviridae; Mimivirus.
OX   NCBI_TaxID=212035;
OH   NCBI_TaxID=5757; Acanthamoeba polyphaga (Amoeba).
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=Rowbotham-Bradford;
RX   PubMed=15486256; DOI=10.1126/science.1101485;
RA   Raoult D., Audic S., Robert C., Abergel C., Renesto P., Ogata H.,
RA   La Scola B., Susan M., Claverie J.-M.;
RT   "The 1.2-megabase genome sequence of Mimivirus.";
RL   Science 306:1344-1350(2004).
RN   [2]
RP   CHARACTERIZATION, AND MUTAGENESIS OF TYR-36; ASP-46; TYR-49; ASP-50 AND
RP   LYS-113.
RC   STRAIN=Rowbotham-Bradford;
RX   PubMed=16844179; DOI=10.1016/j.virol.2006.04.032;
RA   Benarroch D., Shuman S.;
RT   "Characterization of mimivirus NAD(+)-dependent DNA ligase.";
RL   Virology 353:133-143(2006).
CC   -!- FUNCTION: Catalyzes the formation of phosphodiester linkages between
CC       5'-phosphoryl and 3'-hydroxyl groups in double-stranded DNA using NAD
CC       as a coenzyme and as the energy source for the reaction.
CC   -!- CATALYTIC ACTIVITY:
CC       Reaction=NAD(+) + (deoxyribonucleotide)n-3'-hydroxyl + 5'-phospho-
CC         (deoxyribonucleotide)m = (deoxyribonucleotide)n+m + AMP + beta-
CC         nicotinamide D-nucleotide.; EC=6.5.1.2;
CC   -!- SIMILARITY: Belongs to the NAD-dependent DNA ligase family.
CC       {ECO:0000305}.
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DR   EMBL; AY653733; AAV50575.1; -; Genomic_DNA.
DR   RefSeq; YP_003986805.1; NC_014649.1.
DR   SMR; Q5UPZ0; -.
DR   PRIDE; Q5UPZ0; -.
DR   GeneID; 9924919; -.
DR   KEGG; vg:9924919; -.
DR   Proteomes; UP000001134; Genome.
DR   GO; GO:0003911; F:DNA ligase (NAD+) activity; IEA:UniProtKB-EC.
DR   GO; GO:0000166; F:nucleotide binding; IEA:InterPro.
DR   GO; GO:0006281; P:DNA repair; IEA:InterPro.
DR   GO; GO:0006260; P:DNA replication; IEA:UniProtKB-KW.
DR   Gene3D; 2.40.50.140; -; 1.
DR   Gene3D; 3.40.50.10190; -; 1.
DR   InterPro; IPR001357; BRCT_dom.
DR   InterPro; IPR036420; BRCT_dom_sf.
DR   InterPro; IPR010995; DNA_repair_Rad51/TF_NusA_a-hlx.
DR   InterPro; IPR001679; DNAligase.
DR   InterPro; IPR013839; DNAligase_adenylation.
DR   InterPro; IPR013840; DNAligase_N.
DR   InterPro; IPR012340; NA-bd_OB-fold.
DR   InterPro; IPR004150; NAD_DNA_ligase_OB.
DR   Pfam; PF00533; BRCT; 1.
DR   Pfam; PF01653; DNA_ligase_aden; 1.
DR   Pfam; PF03120; DNA_ligase_OB; 1.
DR   PIRSF; PIRSF001604; LigA; 1.
DR   SMART; SM00292; BRCT; 1.
DR   SMART; SM00532; LIGANc; 1.
DR   SUPFAM; SSF47794; SSF47794; 1.
DR   SUPFAM; SSF50249; SSF50249; 1.
DR   SUPFAM; SSF52113; SSF52113; 1.
DR   PROSITE; PS50172; BRCT; 1.
PE   1: Evidence at protein level;
KW   DNA replication; Ligase; NAD; Reference proteome.
FT   CHAIN           1..636
FT                   /note="DNA ligase"
FT                   /id="PRO_0000161777"
FT   DOMAIN          560..636
FT                   /note="BRCT"
FT                   /evidence="ECO:0000255|PROSITE-ProRule:PRU00033"
FT   ACT_SITE        113
FT                   /note="N6-AMP-lysine intermediate"
FT                   /evidence="ECO:0000250"
FT   MUTAGEN         36
FT                   /note="Y->A: 90% loss of nick sealing activity in vitro.
FT                   Complete loss of ligase adenylation activity in vitro."
FT                   /evidence="ECO:0000269|PubMed:16844179"
FT   MUTAGEN         46
FT                   /note="D->A: Complete loss of nick sealing activity in
FT                   vitro. 98% loss of ligase adenylation activity in vitro."
FT                   /evidence="ECO:0000269|PubMed:16844179"
FT   MUTAGEN         49
FT                   /note="Y->A: No effect on nick sealing activity in vitro.
FT                   98% loss of ligase adenylation activity in vitro."
FT                   /evidence="ECO:0000269|PubMed:16844179"
FT   MUTAGEN         50
FT                   /note="D->A: No effect on nick sealing activity in vitro.
FT                   Complete loss of ligase adenylation activity in vitro."
FT                   /evidence="ECO:0000269|PubMed:16844179"
FT   MUTAGEN         113
FT                   /note="K->A: Complete loss of nick sealing activity in
FT                   vitro."
FT                   /evidence="ECO:0000269|PubMed:16844179"
SQ   SEQUENCE   636 AA;  72089 MW;  4DAF37FBE2717744 CRC64;
     MDIIKKIKKS KSLWAILPSL NATDIEEALS VSSEYYHNTG TSLISDQEYD ILMDRLKELN
     PSSKIFAQVG APVKGKKVKL PFWMGSMNKI KADEKAVNKW LNEYSGPYVI SDKLDGISCL
     LTIKNNKTKL YTRGDGTYGQ DITHLLGLIN IDIGLLEEID QDIAIRGELI MSKKNFEKYQ
     EIMANARNMV GGIVNSKPES VNKDHAADVD LIFYEVIKPN DKLSRQLKIL KEWGLKVVYY
     NIYKTFDVNI LESVLSERKK KSGYEIDGII VTDNNKHVRN ISGNPSYSFA FKGDTPTIDT
     VVKRVIWTPS KDGVLVPRIK FKKVRLSNVD LEYTTGFNAK YIVDNKIGSG AIINVVRSGD
     VIPYITHVVK PAKKPDLPNI EYVWDKNGVN IILADINDNE TVIIKRLTKF MRNIGAENIS
     EGITTRLVEA GFDTIPKIIN MTEEDFLTID GFQERLAEKI YNNLQNSLDN LDILTLMDAS
     NIFGRGFGTK KFKKILDVYP NIVNQYTKET DNIWRKKLLD IEGFDTITVN KFLGEMPNFQ
     KFYKVINKTI TIKPYISEVN SEGIFQNQTV VFTGFRNADW QKFIENEGGK VSGSVSKNTS
     LLVYNDGEES SAKYQKAKQL GIKTMTKSSF SKKFEK