UniProtKB - P54358 (DPOD1_DROME)
DNA polymerase delta catalytic subunit
PolD1
Functioni
As the catalytic component of the DNA polymerase delta complex, plays a crucial role in high fidelity genome replication, including lagging strand synthesis, DNA recombination and repair (By similarity).
Exhibits both DNA polymerase and 3'- to 5'-exonuclease activities (PubMed:7907087, PubMed:8415662, PubMed:1360647).
Required at the nucleus of rapidly dividing embryonic cells to activate genome replication during the earliest cell cycles (PubMed:31100062).
Likely to require the presence of accessory proteins PolD2 and PolD3 for full activity (PubMed:31100062).
By similarity4 PublicationsMiscellaneous
Catalytic activityi
- EC:2.7.7.73 Publications
Cofactori
Protein has several cofactor binding sites:- [4Fe-4S] clusterBy similarityNote: Binds 1 [4Fe-4S] cluster.By similarity
- Mg2+2 Publications
Activity regulationi
pH dependencei
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Metal bindingi | 997 | ZincBy similarity | 1 | |
Metal bindingi | 1000 | ZincBy similarity | 1 | |
Metal bindingi | 1014 | ZincBy similarity | 1 | |
Metal bindingi | 1017 | ZincBy similarity | 1 | |
Metal bindingi | 1046 | Iron-sulfur (4Fe-4S)By similarity | 1 | |
Metal bindingi | 1049 | Iron-sulfur (4Fe-4S)By similarity | 1 | |
Metal bindingi | 1059 | Iron-sulfur (4Fe-4S)By similarity | 1 | |
Metal bindingi | 1064 | Iron-sulfur (4Fe-4S)By similarity | 1 |
Regions
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Zinc fingeri | 997 – 1017 | CysA-typeBy similarityAdd BLAST | 21 |
GO - Molecular functioni
- 3'-5'-exodeoxyribonuclease activity Source: FlyBase
- 4 iron, 4 sulfur cluster binding Source: UniProtKB-KW
- DNA binding Source: UniProtKB-KW
- DNA-directed DNA polymerase activity Source: FlyBase
- metal ion binding Source: UniProtKB-KW
- nucleotide binding Source: InterPro
GO - Biological processi
- base-excision repair, gap-filling Source: GO_Central
- DNA-dependent DNA replication Source: FlyBase
- DNA replication proofreading Source: FlyBase
- nucleotide-excision repair, DNA gap filling Source: GO_Central
Keywordsi
Molecular function | DNA-binding, DNA-directed DNA polymerase, Exonuclease, Hydrolase, Nuclease, Nucleotidyltransferase, Transferase |
Biological process | DNA replication |
Ligand | 4Fe-4S, Iron, Iron-sulfur, Metal-binding, Zinc |
Enzyme and pathway databases
Reactomei | R-DME-69166, Removal of the Flap Intermediate R-DME-69183, Processive synthesis on the lagging strand |
Names & Taxonomyi
Protein namesi | |
Gene namesi | ORF Names:CG5949Imported |
Organismi | Drosophila melanogaster (Fruit fly) |
Taxonomic identifieri | 7227 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Ecdysozoa › Arthropoda › Hexapoda › Insecta › Pterygota › Neoptera › Endopterygota › Diptera › Brachycera › Muscomorpha › Ephydroidea › Drosophilidae › Drosophila › Sophophora › |
Proteomesi |
|
Organism-specific databases
FlyBasei | FBgn0263600, PolD1 |
VEuPathDBi | VectorBase:FBgn0263600 |
Subcellular locationi
Nucleus
- Nucleus 1 Publication
- nucleoplasm 1 Publication
Note: In embryos, accumulates in the nucleus during interphase but disperses into the nucleoplasm at the onset of mitosis.1 Publication
Nucleus
- delta DNA polymerase complex Source: FlyBase
- nucleoplasm Source: UniProtKB
- nucleus Source: FlyBase
Keywords - Cellular componenti
NucleusPTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000046447 | 1 – 1092 | DNA polymerase delta catalytic subunitAdd BLAST | 1092 |
Proteomic databases
PaxDbi | P54358 |
PRIDEi | P54358 |
Expressioni
Tissue specificityi
Gene expression databases
Bgeei | FBgn0263600, Expressed in secondary oocyte and 57 other tissues |
Genevisiblei | P54358, DM |
Interactioni
Subunit structurei
Catalytic component of the DNA polymerase delta complex consisting of three subunits: the catalytic subunit PolD1 and two accessory subunits PolD2/Pol31 and PolD3/Pol32 (PubMed:31100062). Within the delta complex, interacts with both PolD2 and PolD3, and is able to interact with PolD2 in the absence of PolD3 (PubMed:31100062).
Interacts with PCNA AND PCNA2 (PubMed:17087725).
2 PublicationsProtein-protein interaction databases
BioGRIDi | 65057, 15 interactors |
DIPi | DIP-22360N |
IntActi | P54358, 8 interactors |
STRINGi | 7227.FBpp0075277 |
Chemistry databases
BindingDBi | P54358 |
Family & Domainsi
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 1 – 71 | DisorderedSequence analysisAdd BLAST | 71 |
Motif
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Motifi | 4 – 19 | Nuclear localization signalSequence analysisAdd BLAST | 16 | |
Motifi | 1046 – 1064 | CysB motifBy similarityAdd BLAST | 19 |
Domaini
Sequence similaritiesi
Zinc finger
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Zinc fingeri | 997 – 1017 | CysA-typeBy similarityAdd BLAST | 21 |
Keywords - Domaini
Zinc-fingerPhylogenomic databases
eggNOGi | KOG0969, Eukaryota |
GeneTreei | ENSGT00560000077365 |
HOGENOMi | CLU_000203_2_0_1 |
InParanoidi | P54358 |
OMAi | GNQKSPY |
OrthoDBi | 20210at2759 |
PhylomeDBi | P54358 |
Family and domain databases
Gene3Di | 1.10.132.60, 1 hit 3.30.420.10, 1 hit 3.90.1600.10, 1 hit |
InterProi | View protein in InterPro IPR006172, DNA-dir_DNA_pol_B IPR017964, DNA-dir_DNA_pol_B_CS IPR006133, DNA-dir_DNA_pol_B_exonuc IPR006134, DNA-dir_DNA_pol_B_multi_dom IPR043502, DNA/RNA_pol_sf IPR042087, DNA_pol_B_thumb IPR023211, DNA_pol_palm_dom_sf IPR012337, RNaseH-like_sf IPR036397, RNaseH_sf IPR025687, Znf-C4pol |
Pfami | View protein in Pfam PF00136, DNA_pol_B, 1 hit PF03104, DNA_pol_B_exo1, 1 hit PF14260, zf-C4pol, 1 hit |
PRINTSi | PR00106, DNAPOLB |
SMARTi | View protein in SMART SM00486, POLBc, 1 hit |
SUPFAMi | SSF53098, SSF53098, 1 hit SSF56672, SSF56672, 1 hit |
PROSITEi | View protein in PROSITE PS00116, DNA_POLYMERASE_B, 1 hit |
i Sequence
Sequence statusi: Complete.
10 20 30 40 50
MDGKRKFNGT SNGHAKKPRN PDDDEEMGFE AELAAFENSE DMDQTLLMGD
60 70 80 90 100
GPENQTTSER WSRPPPPELD PSKHNLEFQQ LDVENYLGQP LPGMPGAQIG
110 120 130 140 150
PVPVVRMFGV TMEGNSVCCH VHGFCPYFYI EAPSQFEEHH CEKLQKALDQ
160 170 180 190 200
KVIADIRNNK DNVQEAVLMV ELVEKLNIHG YNGDKKQRYI KISVTLPRFV
210 220 230 240 250
AAASRLLKKE VIMSEIDFQD CRAFENNIDF DIRFMVDTDV VGCNWIELPM
260 270 280 290 300
GHWRIRNSHS KPLPESRCQI EVDVAFDRFI SHEPEGEWSK VAPFRILSFD
310 320 330 340 350
IECAGRKGIF PEAKIDPVIQ IANMVIRQGE REPFIRNVFT LNECAPIIGS
360 370 380 390 400
QVLCHDKETQ MLDKWSAFVR EVDPDILTGY NINNFDFPYL LNRAAHLKVR
410 420 430 440 450
NFEYLGRIKN IRSVIKEQML QSKQMGRREN QYVNFEGRVP FDLLFVLLRD
460 470 480 490 500
YKLRSYTLNA VSYHFLQEQK EDVHHSIITD LQNGDEQTRR RLAMYCLKDA
510 520 530 540 550
YLPLRLLEKL MAIVNYMEMA RVTGVPLESL LTRGQQIKVL SQLLRKAKTK
560 570 580 590 600
GFIMPSYTSQ GSDEQYEGAT VIEPKRGYYA DPISTLDFAS LYPSIMMAHN
610 620 630 640 650
LCYTTLVLGG TREKLRQQEN LQDDQVERTP ANNYFVKSEV RRGLLPEILE
660 670 680 690 700
SLLAARKRAK NDLKVETDPF KRKVLDGRQL ALKISANSVY GFTGAQVGKL
710 720 730 740 750
PCLEISGSVT AYGRTMIEMT KNEVESHYTQ ANGYENNAVV IYGDTDSVMV
760 770 780 790 800
NFGVKTLERS MELGREAAEL VSSKFVHPIK LEFEKVYYPY LLINKKRYAG
810 820 830 840 850
LYFTRPDTYD KMDCKGIETV RRDNSPLVAN LMNSCLQKLL IERDPDGAVA
860 870 880 890 900
YVKQVIADLL CNRIDISHLV ITKELAKTDY AAKQAHVELA AKMKKRDPGT
910 920 930 940 950
APKLGDRVPY VICAAAKNTP AYQKAEDPLY VLENSVPIDA TYYLEQQLSK
960 970 980 990 1000
PLLRIFEPIL GDNAESILLK GEHTRTRTVV TSKVGGLAGF MTKKTSCLGC
1010 1020 1030 1040 1050
KSLMPKGYEQ ACLCPHCEPR MSELYQKEVG AKRELEETFS RLWTECQRCQ
1060 1070 1080 1090
ESLHEEVICS NRDCPIFYMR QKVRMDLDNQ EKRVLRFGLA EW
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 492 | L → S in CAA61369 (PubMed:8543168).Curated | 1 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | X88928 mRNA Translation: CAA61369.1 AE014296 Genomic DNA Translation: AAF49555.1 AY113526 mRNA Translation: AAM29531.1 |
RefSeqi | NP_524099.2, NM_079375.3 |
Genome annotation databases
EnsemblMetazoai | FBtr0075522; FBpp0075277; FBgn0263600 |
GeneIDi | 39746 |
KEGGi | dme:Dmel_CG5949 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | X88928 mRNA Translation: CAA61369.1 AE014296 Genomic DNA Translation: AAF49555.1 AY113526 mRNA Translation: AAM29531.1 |
RefSeqi | NP_524099.2, NM_079375.3 |
3D structure databases
AlphaFoldDBi | P54358 |
SMRi | P54358 |
ModBasei | Search... |
Protein-protein interaction databases
BioGRIDi | 65057, 15 interactors |
DIPi | DIP-22360N |
IntActi | P54358, 8 interactors |
STRINGi | 7227.FBpp0075277 |
Chemistry databases
BindingDBi | P54358 |
ChEMBLi | CHEMBL3124738 |
Proteomic databases
PaxDbi | P54358 |
PRIDEi | P54358 |
Genome annotation databases
EnsemblMetazoai | FBtr0075522; FBpp0075277; FBgn0263600 |
GeneIDi | 39746 |
KEGGi | dme:Dmel_CG5949 |
Organism-specific databases
CTDi | 39746 |
FlyBasei | FBgn0263600, PolD1 |
VEuPathDBi | VectorBase:FBgn0263600 |
Phylogenomic databases
eggNOGi | KOG0969, Eukaryota |
GeneTreei | ENSGT00560000077365 |
HOGENOMi | CLU_000203_2_0_1 |
InParanoidi | P54358 |
OMAi | GNQKSPY |
OrthoDBi | 20210at2759 |
PhylomeDBi | P54358 |
Enzyme and pathway databases
Reactomei | R-DME-69166, Removal of the Flap Intermediate R-DME-69183, Processive synthesis on the lagging strand |
Miscellaneous databases
BioGRID-ORCSi | 39746, 0 hits in 1 CRISPR screen |
GenomeRNAii | 39746 |
PROi | PR:P54358 |
Gene expression databases
Bgeei | FBgn0263600, Expressed in secondary oocyte and 57 other tissues |
Genevisiblei | P54358, DM |
Family and domain databases
Gene3Di | 1.10.132.60, 1 hit 3.30.420.10, 1 hit 3.90.1600.10, 1 hit |
InterProi | View protein in InterPro IPR006172, DNA-dir_DNA_pol_B IPR017964, DNA-dir_DNA_pol_B_CS IPR006133, DNA-dir_DNA_pol_B_exonuc IPR006134, DNA-dir_DNA_pol_B_multi_dom IPR043502, DNA/RNA_pol_sf IPR042087, DNA_pol_B_thumb IPR023211, DNA_pol_palm_dom_sf IPR012337, RNaseH-like_sf IPR036397, RNaseH_sf IPR025687, Znf-C4pol |
Pfami | View protein in Pfam PF00136, DNA_pol_B, 1 hit PF03104, DNA_pol_B_exo1, 1 hit PF14260, zf-C4pol, 1 hit |
PRINTSi | PR00106, DNAPOLB |
SMARTi | View protein in SMART SM00486, POLBc, 1 hit |
SUPFAMi | SSF53098, SSF53098, 1 hit SSF56672, SSF56672, 1 hit |
PROSITEi | View protein in PROSITE PS00116, DNA_POLYMERASE_B, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | DPOD1_DROME | |
Accessioni | P54358Primary (citable) accession number: P54358 Secondary accession number(s): Q9VUW8 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | October 1, 1996 |
Last sequence update: | February 21, 2001 | |
Last modified: | May 25, 2022 | |
This is version 182 of the entry and version 2 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Drosophila annotation project |
Miscellaneousi
Keywords - Technical termi
Reference proteomeDocuments
- Drosophila
Drosophila: entries, gene names and cross-references to FlyBase - SIMILARITY comments
Index of protein domains and families