ID A0A061F9Y3_THECC Unreviewed; 2035 AA.
AC A0A061F9Y3;
DT 03-SEP-2014, integrated into UniProtKB/TrEMBL.
DT 03-SEP-2014, sequence version 1.
DT 24-JAN-2024, entry version 51.
DE RecName: Full=DNA polymerase zeta catalytic subunit {ECO:0000256|ARBA:ARBA00021589};
DE EC=2.7.7.7 {ECO:0000256|ARBA:ARBA00012417};
GN ORFNames=TCM_026537 {ECO:0000313|EMBL:EOY11309.1};
OS Theobroma cacao (Cacao) (Cocoa).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae;
OC rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma.
OX NCBI_TaxID=3641 {ECO:0000313|EMBL:EOY11309.1, ECO:0000313|Proteomes:UP000026915};
RN [1] {ECO:0000313|EMBL:EOY11309.1, ECO:0000313|Proteomes:UP000026915}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Matina 1-6 {ECO:0000313|Proteomes:UP000026915};
RX PubMed=23731509; DOI=10.1186/gb-2013-14-6-r53;
RA Motamayor J.C., Mockaitis K., Schmutz J., Haiminen N., Iii D.L.,
RA Cornejo O., Findley S.D., Zheng P., Utro F., Royaert S., Saski C.,
RA Jenkins J., Podicheti R., Zhao M., Scheffler B.E., Stack J.C., Feltus F.A.,
RA Mustiga G.M., Amores F., Phillips W., Marelli J.P., May G.D., Shapiro H.,
RA Ma J., Bustamante C.D., Schnell R.J., Main D., Gilbert D., Parida L.,
RA Kuhn D.N.;
RT "The genome sequence of the most widely cultivated cacao type and its use
RT to identify candidate genes regulating pod color.";
RL Genome Biol. 14:R53.1-R53.24(2013).
CC -!- CATALYTIC ACTIVITY:
CC Reaction=a 2'-deoxyribonucleoside 5'-triphosphate + DNA(n) =
CC diphosphate + DNA(n+1); Xref=Rhea:RHEA:22508, Rhea:RHEA-COMP:17339,
CC Rhea:RHEA-COMP:17340, ChEBI:CHEBI:33019, ChEBI:CHEBI:61560,
CC ChEBI:CHEBI:173112; EC=2.7.7.7;
CC Evidence={ECO:0000256|ARBA:ARBA00024632};
CC -!- COFACTOR:
CC Name=[4Fe-4S] cluster; Xref=ChEBI:CHEBI:49883;
CC Evidence={ECO:0000256|ARBA:ARBA00001966};
CC -!- SIMILARITY: Belongs to the DNA polymerase type-B family.
CC {ECO:0000256|ARBA:ARBA00005755}.
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DR EMBL; CM001883; EOY11309.1; -; Genomic_DNA.
DR STRING; 3641.A0A061F9Y3; -.
DR EnsemblPlants; EOY11309; EOY11309; TCM_026537.
DR Gramene; EOY11309; EOY11309; TCM_026537.
DR eggNOG; KOG0968; Eukaryota.
DR InParanoid; A0A061F9Y3; -.
DR OMA; CYSELRG; -.
DR Proteomes; UP000026915; Chromosome 5.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR GO; GO:0016035; C:zeta DNA polymerase complex; IBA:GO_Central.
DR GO; GO:0003677; F:DNA binding; IEA:InterPro.
DR GO; GO:0003887; F:DNA-directed DNA polymerase activity; IBA:GO_Central.
DR GO; GO:0051536; F:iron-sulfur cluster binding; IEA:UniProtKB-KW.
DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR GO; GO:0000166; F:nucleotide binding; IEA:InterPro.
DR GO; GO:0000724; P:double-strand break repair via homologous recombination; IBA:GO_Central.
DR GO; GO:0042276; P:error-prone translesion synthesis; IBA:GO_Central.
DR CDD; cd05778; DNA_polB_zeta_exo; 1.
DR CDD; cd05534; POLBc_zeta; 1.
DR Gene3D; 1.10.132.60; DNA polymerase family B, C-terminal domain; 1.
DR Gene3D; 3.30.342.10; DNA Polymerase, chain B, domain 1; 1.
DR Gene3D; 1.10.287.690; Helix hairpin bin; 1.
DR Gene3D; 3.90.1600.10; Palm domain of DNA polymerase; 1.
DR Gene3D; 3.30.420.10; Ribonuclease H-like superfamily/Ribonuclease H; 1.
DR InterPro; IPR006172; DNA-dir_DNA_pol_B.
DR InterPro; IPR017964; DNA-dir_DNA_pol_B_CS.
DR InterPro; IPR006133; DNA-dir_DNA_pol_B_exonuc.
DR InterPro; IPR006134; DNA-dir_DNA_pol_B_multi_dom.
DR InterPro; IPR043502; DNA/RNA_pol_sf.
DR InterPro; IPR042087; DNA_pol_B_thumb.
DR InterPro; IPR023211; DNA_pol_palm_dom_sf.
DR InterPro; IPR030559; PolZ_Rev3.
DR InterPro; IPR012337; RNaseH-like_sf.
DR InterPro; IPR036397; RNaseH_sf.
DR InterPro; IPR025687; Znf-C4pol.
DR PANTHER; PTHR45812; DNA POLYMERASE ZETA CATALYTIC SUBUNIT; 1.
DR PANTHER; PTHR45812:SF1; DNA POLYMERASE ZETA CATALYTIC SUBUNIT; 1.
DR Pfam; PF00136; DNA_pol_B; 1.
DR Pfam; PF03104; DNA_pol_B_exo1; 1.
DR Pfam; PF14260; zf-C4pol; 1.
DR PRINTS; PR00106; DNAPOLB.
DR SMART; SM00486; POLBc; 1.
DR SUPFAM; SSF56672; DNA/RNA polymerases; 1.
DR SUPFAM; SSF53098; Ribonuclease H-like; 1.
DR PROSITE; PS00116; DNA_POLYMERASE_B; 1.
PE 3: Inferred from homology;
KW DNA damage {ECO:0000256|ARBA:ARBA00022763};
KW DNA repair {ECO:0000256|ARBA:ARBA00023204};
KW DNA-directed DNA polymerase {ECO:0000256|ARBA:ARBA00022932};
KW Iron {ECO:0000256|ARBA:ARBA00023004};
KW Iron-sulfur {ECO:0000256|ARBA:ARBA00023014};
KW Metal-binding {ECO:0000256|ARBA:ARBA00022723};
KW Nucleotidyltransferase {ECO:0000256|ARBA:ARBA00022695};
KW Reference proteome {ECO:0000313|Proteomes:UP000026915};
KW Transferase {ECO:0000256|ARBA:ARBA00022679};
KW Zinc {ECO:0000256|ARBA:ARBA00022833}.
FT DOMAIN 1173..1309
FT /note="DNA-directed DNA polymerase family B exonuclease"
FT /evidence="ECO:0000259|Pfam:PF03104"
FT DOMAIN 1441..1888
FT /note="DNA-directed DNA polymerase family B
FT multifunctional"
FT /evidence="ECO:0000259|Pfam:PF00136"
FT DOMAIN 1934..2007
FT /note="C4-type zinc-finger of DNA polymerase delta"
FT /evidence="ECO:0000259|Pfam:PF14260"
FT REGION 545..593
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 823..854
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 545..575
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 576..592
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 823..844
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ SEQUENCE 2035 AA; 225289 MW; 90B42F488EF9DC48 CRC64;
MSNSQPDSNV FSVRIVSIDH YMARPISGYD TCYSSFQGER VNEVPVIRIY GSTPAGQKTC
LHIHRALPYL YVPLVDILPQ GSHTHQEDHA CADALALALE KALKLKVGAG SKRQHVHGCS
LVRAKKFYGY RSSEELFVKI YLYYPHDVSR AANLLLAGAV LDKSSQPHES HIPFILQFLV
DYNLYGMGHL HLSRMKFRNP IPDLSHPRKI NNCGQHGQKM DDLTLKAAGF QADSSRDVCI
NSPVWISSTI PGEWMWHVSA ELDVSSDQDI CHVKRQSLCE LEGDATLDDI LNQQFKIYTS
LSQTCSDVKM VQSLIPIWEE ECERTGMHEM ALPSYPDRPL SEDVLKALSL GVGFEDELMK
LCSKVEETLS HNELGFEQSV IPSANEENLV GPTHINLNHT VPQALSCSKE QSLLGSLSQH
CKPCEKEMNA ASSEKKDVCP ELLSVGEILS SQTATDTEAL GLLAWLANSH AADDINSDDE
LVRETILTPL LPATTIDKVL EKASIDYESE SQKECQDILD SVGDLIEFDG LKERNSHSYD
HIQISSGKHI PQTDGSSDDL GLSPSAGSVA NSSKADMKTE LKRSSQDTSK TFSTKRKRKK
LLWGSLPLSV TGKGKDNSDS VSFNITEACA DEIKECLGTS FSAENDLGKA SDPLNKNAHA
SDDKQEAGIL VECTVRDLMR RKRSRRIEPA DCGSVRSENV HLKMEKGKDS FFCPKQLNFH
GSHNELDKKG PGSLNHSPSL ANEQKEFPEA VGFKPTHSDS VYCTLPQLSG ISNPAQANTG
HPEQMGKKLV LNFYPKKHDS AISIGHCETY KGKEFDFRVT SAESRNSDAH TSKAHKEIDS
PDERLQQTDT NGSWCLSASP RTHKMLGMDG YIHETYYEGE ISLSADKPVG IDATTDKSYP
QNEDCGGGKQ GCITGLVVDV EAKPVELIGM TFCKKPPTAD WNDGATENVT HLPTTQHSPS
LFNEENCQGT SGRALDEVLP FFSRGCEEEK EVQNKCLGNN NSNFHQEAAL GVPIHYQNDG
SFLYLLTPVS SPPSPDSVYR WLSCDEEGSH RQSNAVSAES PSLTGSTECL IASENSSPVN
CNEALTKSSS KYHMTSMLEQ GHPEKNMVLG SEVKSCSNES RTPCQSEENI RTVNACADGS
QDMSQISGPD GKSRPTPLSQ IGFRDPASVG AGQQLTLLSL EVHTESRGDL RPDPRFDAVN
VVALAIQNDN DSETEVHVLL YSKTGFYQRN LDGIFGLKVF VFSEEKHLFG QFMKILCSLD
PDILMGWDVQ GGSLGFLAER AAYLGIGLLN KISRTPSETK IKAEETNISQ KGSQEELLSK
PLIADSIVME DAIIEDEWGR THASGVHVGG RIVLNVWRLM RGEVKLNMYT VEAVAESVLR
QKIPSIPYKV LTKWFSSGPA QARYRCVEYV VERAKLNLQI MNKLDMINRT SELARVFGID
FFSVLSRGSQ FRVESMFLRL AHTQNYLAIS PGNQQVASQP AMECLPLVME PESGFYADPV
VVLDFQSLYP SMIIAYNLCF CTCLGKIANS KVNTLGVSSY APDPNVLRNL KDQVLLTPNG
VMYVPSKVRK GVLPRLLEEI LSTRIMVKQA MKKLTPSQQV LQRIFNARQL ALKLIANVTY
GYTAAGFSGR MPCAELADSI VQCGRSTLEK AISYVNAHEK WRANVIYGDT DSMFVLLKGR
TVKESFKIGH EIASAITAMN PNPVTLKMEK VYHPCFLLTK KRYVGYSYES PDQVKPVFDA
KGIETVRRDT CGAVAKTMEQ SLRLFFEHQD IPKVKAYLHR QWTRILSGRV SLQDFVFAKE
VRLGTYSTKV GSLPPAAIVA TKAMRADPRA EPRYAERVPY VVIHGEPGAR LVDMVVDPLE
LLAINSPYRL NDLYYINKQI IPALQRVFGL VGADLNRWFS EMPRLAREAF GKCGVHALNP
QRTRIDYYYL SKHCILCGDL VQASAHLCGK CSENKTAAAT AIVGRTSKSE REMQHLVAIC
RHCGGGDWLV ESGVKCNSLA CSVFYERRKV QKELQGLSAV ATDKGLYPKC MVEWF
//