ID A0A0W1DQ92_9SPHN Unreviewed; 835 AA.
AC A0A0W1DQ92;
DT 16-MAR-2016, integrated into UniProtKB/TrEMBL.
DT 16-MAR-2016, sequence version 1.
DT 27-MAR-2024, entry version 36.
DE RecName: Full=DNA ligase (ATP) {ECO:0000256|ARBA:ARBA00012727};
DE EC=6.5.1.1 {ECO:0000256|ARBA:ARBA00012727};
DE AltName: Full=NHEJ DNA polymerase {ECO:0000256|ARBA:ARBA00029943};
GN ORFNames=ATE67_11760 {ECO:0000313|EMBL:KTE20060.1};
OS Sphingopyxis sp. H050.
OC Bacteria; Pseudomonadota; Alphaproteobacteria; Sphingomonadales;
OC Sphingomonadaceae; Sphingopyxis.
OX NCBI_TaxID=1759072 {ECO:0000313|EMBL:KTE20060.1, ECO:0000313|Proteomes:UP000053439};
RN [1] {ECO:0000313|Proteomes:UP000053439}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=H050 {ECO:0000313|Proteomes:UP000053439};
RA Gomez-Alvarez V., Revetta R.P.;
RL Submitted (NOV-2015) to the EMBL/GenBank/DDBJ databases.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=ATP + (deoxyribonucleotide)n-3'-hydroxyl + 5'-phospho-
CC (deoxyribonucleotide)m = (deoxyribonucleotide)n+m + AMP +
CC diphosphate.; EC=6.5.1.1; Evidence={ECO:0000256|ARBA:ARBA00034003};
CC -!- COFACTOR:
CC Name=Mn(2+); Xref=ChEBI:CHEBI:29035;
CC Evidence={ECO:0000256|ARBA:ARBA00001936};
CC -!- CAUTION: The sequence shown here is derived from an EMBL/GenBank/DDBJ
CC whole genome shotgun (WGS) entry which is preliminary data.
CC {ECO:0000313|EMBL:KTE20060.1}.
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DR EMBL; LNRZ01000005; KTE20060.1; -; Genomic_DNA.
DR RefSeq; WP_058816868.1; NZ_LNRZ01000005.1.
DR AlphaFoldDB; A0A0W1DQ92; -.
DR STRING; 1759072.ATE67_11760; -.
DR OrthoDB; 9802472at2; -.
DR Proteomes; UP000053439; Unassembled WGS sequence.
DR GO; GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0003910; F:DNA ligase (ATP) activity; IEA:UniProtKB-EC.
DR GO; GO:0003887; F:DNA-directed DNA polymerase activity; IEA:UniProtKB-KW.
DR GO; GO:0004527; F:exonuclease activity; IEA:UniProtKB-KW.
DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR GO; GO:0006310; P:DNA recombination; IEA:UniProtKB-KW.
DR GO; GO:0006281; P:DNA repair; IEA:UniProtKB-KW.
DR CDD; cd07906; Adenylation_DNA_ligase_LigD_LigC; 1.
DR CDD; cd07971; OBF_DNA_ligase_LigD; 1.
DR CDD; cd04862; PaeLigD_Pol_like; 1.
DR Gene3D; 3.30.470.30; DNA ligase/mRNA capping enzyme; 1.
DR Gene3D; 3.90.920.10; DNA primase, PRIM domain; 1.
DR Gene3D; 2.40.50.140; Nucleic acid-binding proteins; 1.
DR InterPro; IPR012309; DNA_ligase_ATP-dep_C.
DR InterPro; IPR012310; DNA_ligase_ATP-dep_cent.
DR InterPro; IPR014146; LigD_ligase_dom.
DR InterPro; IPR014144; LigD_PE_domain.
DR InterPro; IPR014145; LigD_pol_dom.
DR InterPro; IPR012340; NA-bd_OB-fold.
DR InterPro; IPR014143; NHEJ_ligase_prk.
DR InterPro; IPR033651; PaeLigD_Pol-like.
DR NCBIfam; TIGR02777; LigD_PE_dom; 1.
DR NCBIfam; TIGR02778; ligD_pol; 1.
DR NCBIfam; TIGR02779; NHEJ_ligase_lig; 1.
DR NCBIfam; TIGR02776; NHEJ_ligase_prk; 1.
DR PANTHER; PTHR42705; BIFUNCTIONAL NON-HOMOLOGOUS END JOINING PROTEIN LIGD; 1.
DR PANTHER; PTHR42705:SF2; MULTIFUNCTIONAL NON-HOMOLOGOUS END JOINING DNA REPAIR PROTEIN LIGD; 1.
DR Pfam; PF04679; DNA_ligase_A_C; 1.
DR Pfam; PF01068; DNA_ligase_A_M; 1.
DR Pfam; PF13298; LigD_N; 1.
DR Pfam; PF21686; LigD_Prim-Pol; 1.
DR SUPFAM; SSF56091; DNA ligase/mRNA capping enzyme, catalytic domain; 1.
DR SUPFAM; SSF50249; Nucleic acid-binding proteins; 1.
DR PROSITE; PS50160; DNA_LIGASE_A3; 1.
PE 4: Predicted;
KW ATP-binding {ECO:0000256|ARBA:ARBA00022840};
KW DNA damage {ECO:0000256|ARBA:ARBA00022763};
KW DNA recombination {ECO:0000256|ARBA:ARBA00023172};
KW DNA repair {ECO:0000256|ARBA:ARBA00023204};
KW DNA-binding {ECO:0000256|ARBA:ARBA00023125};
KW DNA-directed DNA polymerase {ECO:0000256|ARBA:ARBA00022932};
KW Exonuclease {ECO:0000256|ARBA:ARBA00022839};
KW Hydrolase {ECO:0000256|ARBA:ARBA00022801};
KW Ligase {ECO:0000256|ARBA:ARBA00022598, ECO:0000313|EMBL:KTE20060.1};
KW Manganese {ECO:0000256|ARBA:ARBA00023211};
KW Metal-binding {ECO:0000256|ARBA:ARBA00022723};
KW Multifunctional enzyme {ECO:0000256|ARBA:ARBA00023268};
KW Nuclease {ECO:0000256|ARBA:ARBA00022722};
KW Nucleotide-binding {ECO:0000256|ARBA:ARBA00022741};
KW Nucleotidyltransferase {ECO:0000256|ARBA:ARBA00022695};
KW Transferase {ECO:0000256|ARBA:ARBA00022679}.
FT DOMAIN 330..421
FT /note="ATP-dependent DNA ligase family profile"
FT /evidence="ECO:0000259|PROSITE:PS50160"
FT REGION 534..553
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ SEQUENCE 835 AA; 91245 MW; D7EEC2AABE781DFF CRC64;
MAKRGDPLAQ YNAKRDFALT PEPAGKVEKG AGNRFIVQKH DATRLHYDFR LEVDGVLKSW
AVTKGPSADP ADKRLAVRTE DHPMSYADFE GSIPKGEYGG GTVMLWDRGT WAPIAGKSAK
DIDKGHLHFT LDGERMKGEW LLVRMKPRPG EKRENWLLRK VDDAFAGGTD DLVGRQLTSI
LTGRTMAEIA GDEGGEQSLN GAEGAAFAKK MADAAAHNKK IAKPAAKGKP PKFRPLQLAT
LVDAVPGGNG WFHEIKYDGY RAEIAAAGDD VRVYTRNGLD WTDKFAPLVR HIAALDLPPC
LIDGEIVAYG KDGNPDFSSL QAVLKRGHGA QDEGTALHLF AFDLLEQDGK SLAQLGNLER
KERLEALLRD AKAPIAVADH VIGAGEKLYD AMCRAGQEGI ISKRADAAYS GRRSKNWVKV
KCTRRQEFIL VGWNPSSTKA RPFASLLLAQ REGNTLVYKG NVGTGFDADT MADLAKKFAK
LERKTAPLDV DAASARKVHW LTPELVAEIA FAEFTASGSV RHASFLGLRQ DKEAKDVTPE
KKQPAPAPTS DVTISSRDRV IFPEAKATKG DLADYYTAIA PVMLPHTARR PISLVRCPQG
RGKKCFFQKH DSGSFGDHVL HVPIEEKDGG HEDYLYVEDA DGLLACVQMG TIEFHGWGSH
VDALERPDRM VFDLDPDEGL DFADVKKAAL DIRRQLADIG LVSFAMLSGG KGVHIVVPLD
PGHSWDAHKD FSKRFAEALS LAEPDRFVAT MSKAKRKGKI FIDYLRNQRG STAVMPYSAR
AREQAPVAVP VGWDALADVK KAGAWTIKDA NILLERAASA ELKGWGFASQ RLPSL
//
