Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Entry version 104 (29 Sep 2021)
Sequence version 1 (13 Sep 2004)
Previous versions | rss
Add a publicationFeedback
Protein

DNA polymerase delta subunit 2

Gene

Pold2

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score:

Annotation score:4 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Accessory component of both the DNA polymerase delta complex and the DNA polymerase zeta complex. As a component of the trimeric and tetrameric DNA polymerase delta complexes (Pol-delta3 and Pol-delta4, respectively), plays a role in high fidelity genome replication, including in lagging strand synthesis, and repair. Pol-delta3 and Pol-delta4 are characterized by the absence or the presence of POLD4. They exhibit differences in catalytic activity. Most notably, Pol-delta3 shows higher proofreading activity than Pol-delta4. Although both Pol-delta3 and Pol-delta4 process Okazaki fragments in vitro, Pol-delta3 may also be better suited to fulfill this task, exhibiting near-absence of strand displacement activity compared to Pol-delta4 and stalling on encounter with the 5'-blocking oligonucleotides. Pol-delta3 idling process may avoid the formation of a gap, while maintaining a nick that can be readily ligated. Along with DNA polymerase kappa, DNA polymerase delta carries out approximately half of nucleotide excision repair (NER) synthesis following UV irradiation. Under conditions of DNA replication stress, required for the repair of broken replication forks through break-induced replication (BIR). Involved in the translesion synthesis (TLS) of templates carrying O6-methylguanine or abasic sites performed by Pol-delta4, independently of DNA polymerase zeta (REV3L) or eta (POLH). Facilitates abasic site bypass by DNA polymerase delta by promoting extension from the nucleotide inserted opposite the lesion. Also involved in TLS as a component of the DNA polymerase zeta complex. Along with POLD3, dramatically increases the efficiency and processivity of DNA synthesis of the DNA polymerase zeta complex compared to the minimal zeta complex, consisting of only REV3L and REV7.

By similarity

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Biological processDNA damage, DNA excision, DNA repair, DNA replication

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-RNO-110314, Recognition of DNA damage by PCNA-containing replication complex
R-RNO-174411, Polymerase switching on the C-strand of the telomere
R-RNO-174414, Processive synthesis on the C-strand of the telomere
R-RNO-174417, Telomere C-strand (Lagging Strand) Synthesis
R-RNO-174437, Removal of the Flap Intermediate from the C-strand
R-RNO-5358565, Mismatch repair (MMR) directed by MSH2:MSH6 (MutSalpha)
R-RNO-5358606, Mismatch repair (MMR) directed by MSH2:MSH3 (MutSbeta)
R-RNO-5651801, PCNA-Dependent Long Patch Base Excision Repair
R-RNO-5656169, Termination of translesion DNA synthesis
R-RNO-5685942, HDR through Homologous Recombination (HRR)
R-RNO-5696397, Gap-filling DNA repair synthesis and ligation in GG-NER
R-RNO-5696400, Dual Incision in GG-NER
R-RNO-6782135, Dual incision in TC-NER
R-RNO-6782210, Gap-filling DNA repair synthesis and ligation in TC-NER
R-RNO-69091, Polymerase switching
R-RNO-69166, Removal of the Flap Intermediate
R-RNO-69183, Processive synthesis on the lagging strand

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
DNA polymerase delta subunit 2
Alternative name(s):
DNA polymerase delta subunit p50
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:Pold2
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiRattus norvegicus (Rat)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri10116 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeRattus
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000002494 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 14

Organism-specific databases

Rat genome database

More...
RGDi
1304954, Pold2

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Keywords - Cellular componenti

Nucleus

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00002485891 – 469DNA polymerase delta subunit 2Add BLAST469

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section specifies the position and type of each modified residue excluding <a href="http://www.uniprot.org/manual/lipid">lipids</a>, <a href="http://www.uniprot.org/manual/carbohyd">glycans</a> and <a href="http://www.uniprot.org/manual/crosslnk">protein cross-links</a>.<p><a href='/help/mod_res' target='_top'>More...</a></p>Modified residuei1N-acetylmethionineBy similarity1
Modified residuei15PhosphoserineBy similarity1
Modified residuei257PhosphoserineBy similarity1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
Q6AXY4

PRoteomics IDEntifications database

More...
PRIDEi
Q6AXY4

PTM databases

SwissPalm database of S-palmitoylation events

More...
SwissPalmi
Q6AXY4

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...
Bgeei
ENSRNOG00000014098, Expressed in testis and 22 other tissues

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
Q6AXY4, RN

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Component of both the DNA polymerase delta and DNA polymerase zeta complexes.

Component of the tetrameric DNA polymerase delta complex (Pol-delta4), which consists of POLD1/p125, POLD2/p50, POLD3/p66/p68 and POLD4/p12, with POLD1 bearing DNA polymerase and 3' to 5' proofreading exonuclease activities. Within Pol-delta4, directly interacts with POLD1, POLD3 and POLD4. Following stress caused by DNA damaging agents or by replication stress, POLD4 is degraded and Pol-delta4 is converted into a trimeric form of the complex (Pol-delta3), which consists of POLD1, POLD2 and POLD3. Pol-delta3 is the major form occurring at S phase replication sites, as well as DNA damage sites. Also observed as a dimeric complex with POLD2 (Pol-delta2 complex). Pol-delta2 is relatively insensitive to the PCNA stimulation (2-5-fold) compared to Pol-delta4 that is stimulated by over 50-fold. Contrary to the other components of Pol-delta4, does not directly interact with PCNA. As POLD1 and POLD4, directly interacts with WRNIP1; this interaction stimulates DNA polymerase delta-mediated DNA synthesis, independently of the presence of PCNA. This stimulation may be due predominantly to an increase of initiation frequency and also to increased processivity. Directly interacts with POLDIP2 and POLDIP3. Directly interacts with KCTD13/PDIP1; in the presence of PCNA, this interaction may stimulate DNA polymerase activity.

Component of the tetrameric Pol-zeta complex (Pol-zeta4), which consists of REV3L, MAD2L2, POLD2 and POLD3, with REV3L bearing DNA polymerase catalytic activity (By similarity).

Interacts with KCTD10 (PubMed:15982757).

By similarity1 Publication

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

More...
BioGRIDi
253015, 1 interactor

ComplexPortal: manually curated resource of macromolecular complexes

More...
ComplexPortali
CPX-2099, DNA polymerase delta heterotetramer

STRING: functional protein association networks

More...
STRINGi
10116.ENSRNOP00000019288

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
Q6AXY4

Database of comparative protein structure models

More...
ModBasei
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG2732, Eukaryota

Ensembl GeneTree

More...
GeneTreei
ENSGT00390000006780

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q6AXY4

Identification of Orthologs from Complete Genome Data

More...
OMAi
DPANFML

Database of Orthologous Groups

More...
OrthoDBi
736068at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q6AXY4

TreeFam database of animal gene trees

More...
TreeFami
TF101073

Family and domain databases

Conserved Domains Database

More...
CDDi
cd07387, MPP_PolD2_C, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR007185, DNA_pol_a/d/e_bsu
IPR040663, DNA_pol_D_N
IPR024826, DNA_pol_delta/II_ssu
IPR041863, PolD2_C

The PANTHER Classification System

More...
PANTHERi
PTHR10416, PTHR10416, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF18018, DNA_pol_D_N, 1 hit
PF04042, DNA_pol_E_B, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

Q6AXY4-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MFSEQAAQRA HTLLSPPSAS NATFARVPVA TYTNSSQPFR LGERSFNRQY
60 70 80 90 100
AHIYATRLIQ MRPFLVSRAQ QHWGSQVEVK KLCELQPGEQ CCVVGTLFKA
110 120 130 140 150
MPLQPSILRE ISEEHNLIPQ PPRSKYIHPD DELVLEDELQ RIKLKGTIDV
160 170 180 190 200
SKLVTGTVLA VFGSVKDDGK FQVEDHCFAD LAPQNPVPPL DTDRFVLLVS
210 220 230 240 250
GLGLGGGGGE SLLGTQLLVD VVTGQLGDEG EQCSAAHVSR VILAGNLLSH
260 270 280 290 300
NTQSRDSINK AKYLTKKTQA ASVEAVKMLD EILLQLSASV PVDVMPGEFD
310 320 330 340 350
PTNYTLPQQP LHPCMFPLAT AYATLQLVTN PYQATIDGVR FLGTSGQNVS
360 370 380 390 400
DIFRYSSMED HLEILEWTLR VRHISPTAPD TLGCYPFYKT DPFIFAECPH
410 420 430 440 450
VYFCGNTPSF GSKVIRGPED QAVLLVAVPD FSSTQTACLV NLRGLTCQPI
460
SFAGFGAEQD DLEDLGLGP
Length:469
Mass (Da):51,346
Last modified:September 13, 2004 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iE6619AD76045911A
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
BC079267 mRNA Translation: AAH79267.1

NCBI Reference Sequences

More...
RefSeqi
NP_001013068.1, NM_001013050.1

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...
Ensembli
ENSRNOT00000019288; ENSRNOP00000019288; ENSRNOG00000014098
ENSRNOT00000084633; ENSRNOP00000072093; ENSRNOG00000014098

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
289758

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
rno:289758

UCSC genome browser

More...
UCSCi
RGD:1304954, rat

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC079267 mRNA Translation: AAH79267.1
RefSeqiNP_001013068.1, NM_001013050.1

3D structure databases

SMRiQ6AXY4
ModBaseiSearch...

Protein-protein interaction databases

BioGRIDi253015, 1 interactor
ComplexPortaliCPX-2099, DNA polymerase delta heterotetramer
STRINGi10116.ENSRNOP00000019288

PTM databases

SwissPalmiQ6AXY4

Proteomic databases

PaxDbiQ6AXY4
PRIDEiQ6AXY4

Genome annotation databases

EnsembliENSRNOT00000019288; ENSRNOP00000019288; ENSRNOG00000014098
ENSRNOT00000084633; ENSRNOP00000072093; ENSRNOG00000014098
GeneIDi289758
KEGGirno:289758
UCSCiRGD:1304954, rat

Organism-specific databases

Comparative Toxicogenomics Database

More...
CTDi
5425
RGDi1304954, Pold2

Phylogenomic databases

eggNOGiKOG2732, Eukaryota
GeneTreeiENSGT00390000006780
InParanoidiQ6AXY4
OMAiDPANFML
OrthoDBi736068at2759
PhylomeDBiQ6AXY4
TreeFamiTF101073

Enzyme and pathway databases

ReactomeiR-RNO-110314, Recognition of DNA damage by PCNA-containing replication complex
R-RNO-174411, Polymerase switching on the C-strand of the telomere
R-RNO-174414, Processive synthesis on the C-strand of the telomere
R-RNO-174417, Telomere C-strand (Lagging Strand) Synthesis
R-RNO-174437, Removal of the Flap Intermediate from the C-strand
R-RNO-5358565, Mismatch repair (MMR) directed by MSH2:MSH6 (MutSalpha)
R-RNO-5358606, Mismatch repair (MMR) directed by MSH2:MSH3 (MutSbeta)
R-RNO-5651801, PCNA-Dependent Long Patch Base Excision Repair
R-RNO-5656169, Termination of translesion DNA synthesis
R-RNO-5685942, HDR through Homologous Recombination (HRR)
R-RNO-5696397, Gap-filling DNA repair synthesis and ligation in GG-NER
R-RNO-5696400, Dual Incision in GG-NER
R-RNO-6782135, Dual incision in TC-NER
R-RNO-6782210, Gap-filling DNA repair synthesis and ligation in TC-NER
R-RNO-69091, Polymerase switching
R-RNO-69166, Removal of the Flap Intermediate
R-RNO-69183, Processive synthesis on the lagging strand

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q6AXY4

Gene expression databases

BgeeiENSRNOG00000014098, Expressed in testis and 22 other tissues
GenevisibleiQ6AXY4, RN

Family and domain databases

CDDicd07387, MPP_PolD2_C, 1 hit
InterProiView protein in InterPro
IPR007185, DNA_pol_a/d/e_bsu
IPR040663, DNA_pol_D_N
IPR024826, DNA_pol_delta/II_ssu
IPR041863, PolD2_C
PANTHERiPTHR10416, PTHR10416, 1 hit
PfamiView protein in Pfam
PF18018, DNA_pol_D_N, 1 hit
PF04042, DNA_pol_E_B, 1 hit

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiDPOD2_RAT
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: Q6AXY4
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: September 5, 2006
Last sequence update: September 13, 2004
Last modified: September 29, 2021
This is version 104 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

We'd like to inform you that we have updated our Privacy Notice to comply with Europe’s new General Data Protection Regulation (GDPR) that applies since 25 May 2018.

Do not show this banner again