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Q9JIW4

- DPOLM_MOUSE

UniProt

Q9JIW4 - DPOLM_MOUSE

Protein

DNA-directed DNA/RNA polymerase mu

Gene

Polm

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 112 (01 Oct 2014)
      Sequence version 2 (03 Oct 2012)
      Previous versions | rss
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    Functioni

    Gap-filling polymerase involved in repair of DNA double-strand breaks by non-homologous end joining (NHEJ). Participates in immunoglobulin (Ig) light chain gene rearrangement in V(D)J recombination.2 Publications

    Catalytic activityi

    Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1).

    Cofactori

    Magnesium.1 Publication

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi241 – 2411Sodium; via carbonyl oxygenBy similarity
    Metal bindingi243 – 2431Sodium; via carbonyl oxygenBy similarity
    Metal bindingi330 – 3301Magnesium
    Metal bindingi332 – 3321Magnesium
    Metal bindingi420 – 4201MagnesiumBy similarity
    Sitei435 – 4351Responsible for the low discrimination between dNTP and rNTPBy similarity

    GO - Molecular functioni

    1. DNA binding Source: InterPro
    2. DNA-directed DNA polymerase activity Source: UniProtKB-KW
    3. metal ion binding Source: UniProtKB-KW

    GO - Biological processi

    1. B cell differentiation Source: MGI
    2. DNA recombination Source: UniProtKB-KW
    3. DNA repair Source: UniProtKB-KW
    4. somatic hypermutation of immunoglobulin genes Source: MGI

    Keywords - Molecular functioni

    DNA-directed DNA polymerase, Nucleotidyltransferase, Transferase

    Keywords - Biological processi

    DNA damage, DNA recombination, DNA repair

    Keywords - Ligandi

    Magnesium, Metal-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA-directed DNA/RNA polymerase mu (EC:2.7.7.7)
    Short name:
    Pol Mu
    Alternative name(s):
    Terminal transferase
    Gene namesi
    Name:Polm
    Synonyms:polmu
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 11

    Organism-specific databases

    MGIiMGI:1860191. Polm.

    Subcellular locationi

    Nucleus By similarity

    GO - Cellular componenti

    1. nucleus Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 496496DNA-directed DNA/RNA polymerase muPRO_0000218788Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei12 – 121PhosphoserineBy similarity

    Keywords - PTMi

    Phosphoprotein

    Proteomic databases

    PRIDEiQ9JIW4.

    PTM databases

    PhosphoSiteiQ9JIW4.

    Expressioni

    Gene expression databases

    ArrayExpressiQ9JIW4.
    CleanExiMM_POLM.
    GenevestigatoriQ9JIW4.

    Structurei

    Secondary structure

    1
    496
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi142 – 1443
    Helixi154 – 16916
    Helixi173 – 18816
    Helixi196 – 1994
    Helixi207 – 21913
    Helixi223 – 2308
    Helixi232 – 24110
    Helixi248 – 2569
    Helixi262 – 2665
    Helixi274 – 2818
    Helixi283 – 2875
    Helixi292 – 30716
    Beta strandi314 – 3174
    Helixi319 – 3224
    Beta strandi326 – 33611
    Turni340 – 3456
    Helixi346 – 35611
    Beta strandi360 – 3667
    Beta strandi389 – 3979
    Beta strandi414 – 42310
    Helixi429 – 4379
    Helixi440 – 45415
    Helixi477 – 4837
    Helixi491 – 4933

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    2IHMX-ray2.40A/B137-496[»]
    ProteinModelPortaliQ9JIW4.
    SMRiQ9JIW4. Positions 21-124, 137-496.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ9JIW4.

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini23 – 122100BRCTPROSITE-ProRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni323 – 33210Involved in ssDNA binding

    Sequence similaritiesi

    Belongs to the DNA polymerase type-X family.Curated
    Contains 1 BRCT domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiCOG1796.
    GeneTreeiENSGT00530000063002.
    HOGENOMiHOG000263600.
    HOVERGENiHBG003670.
    KOiK03513.

    Family and domain databases

    Gene3Di1.10.150.110. 1 hit.
    3.30.210.10. 1 hit.
    3.40.50.10190. 1 hit.
    InterProiIPR001357. BRCT_dom.
    IPR002054. DNA-dir_DNA_pol_X.
    IPR027249. DNA/RNApol_mu.
    IPR019843. DNA_pol-X_BS.
    IPR010996. DNA_pol_b-like_N.
    IPR028207. DNA_pol_B_palm_palm.
    IPR018944. DNA_pol_lambd_fingers_domain.
    IPR022312. DNA_pol_X.
    IPR027421. DNA_pol_X_lyase_dom.
    IPR029398. PolB_thumb.
    IPR001726. TdT/Mu.
    [Graphical view]
    PfamiPF14792. DNA_pol_B_palm. 1 hit.
    PF14791. DNA_pol_B_thumb. 1 hit.
    PF10391. DNA_pol_lambd_f. 1 hit.
    [Graphical view]
    PIRSFiPIRSF000817. DNA_NT. 1 hit.
    PIRSF501176. DNApol_mu. 1 hit.
    PRINTSiPR00869. DNAPOLX.
    PR00871. DNAPOLXTDT.
    SMARTiSM00483. POLXc. 1 hit.
    [Graphical view]
    SUPFAMiSSF47802. SSF47802. 1 hit.
    SSF52113. SSF52113. 1 hit.
    PROSITEiPS50172. BRCT. 1 hit.
    PS00522. DNA_POLYMERASE_X. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q9JIW4-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLPKRRRVRA GSPHSAVASS TPPSVVRFPD VAIYLAEPRM GRSRRAFLTR    50
    LARSKGFRVL DAYSSKVTHV VMEGTSAKEA ICWQKNMDAL PTGCPQPALL 100
    DISWFTESMA AGQPVPEEGR HHLEVAEPRK EPPVSASMPA YACQRPSPLT 150
    HHNTLLSEAL ETLAEAAGFE ANEGRLLSFS RAASVLKSLP CPVASLSQLH 200
    GLPYFGEHST RVIQELLEHG TCEEVKQVRC SERYQTMKLF TQVFGVGVKT 250
    ANRWYQEGLR TLDELREQPQ RLTQQQKAGL QYYQDLSTPV RRADAEALQQ 300
    LIEAAVRQTL PGATVTLTGG FRRGKLQGHD VDFLITHPEE GQEVGLLPKV 350
    MSCLQSQGLV LYHQYHRSHL ADSAHNLRQR SSTMDAFERS FCILGLPQPQ 400
    QAALAGALPP CPTWKAVRVD LVVTPSSQFP FALLGWTGSQ FFERELRRFS 450
    RQEKGLWLNS HGLFDPEQKR VFHATSEEDV FRLLGLKYLP PEQRNA 496
    Length:496
    Mass (Da):55,490
    Last modified:October 3, 2012 - v2
    Checksum:iD087636E30C27127
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti18 – 181A → D in AAF27552. (PubMed:10982892)Curated
    Sequence conflicti386 – 3861A → V in CAB71154. (PubMed:10747040)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF176098 mRNA. Translation: AAF27552.1.
    AJ251804 mRNA. Translation: CAB71154.1.
    AL627069 Genomic DNA. No translation available.
    CH466574 Genomic DNA. Translation: EDL40561.1.
    CCDSiCCDS24405.1.
    RefSeqiNP_059097.2. NM_017401.2.
    UniGeneiMm.260194.

    Genome annotation databases

    EnsembliENSMUST00000020767; ENSMUSP00000020767; ENSMUSG00000020474.
    GeneIDi54125.
    KEGGimmu:54125.
    UCSCiuc007hxf.2. mouse.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF176098 mRNA. Translation: AAF27552.1 .
    AJ251804 mRNA. Translation: CAB71154.1 .
    AL627069 Genomic DNA. No translation available.
    CH466574 Genomic DNA. Translation: EDL40561.1 .
    CCDSi CCDS24405.1.
    RefSeqi NP_059097.2. NM_017401.2.
    UniGenei Mm.260194.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    2IHM X-ray 2.40 A/B 137-496 [» ]
    ProteinModelPortali Q9JIW4.
    SMRi Q9JIW4. Positions 21-124, 137-496.
    ModBasei Search...
    MobiDBi Search...

    PTM databases

    PhosphoSitei Q9JIW4.

    Proteomic databases

    PRIDEi Q9JIW4.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000020767 ; ENSMUSP00000020767 ; ENSMUSG00000020474 .
    GeneIDi 54125.
    KEGGi mmu:54125.
    UCSCi uc007hxf.2. mouse.

    Organism-specific databases

    CTDi 27434.
    MGIi MGI:1860191. Polm.

    Phylogenomic databases

    eggNOGi COG1796.
    GeneTreei ENSGT00530000063002.
    HOGENOMi HOG000263600.
    HOVERGENi HBG003670.
    KOi K03513.

    Miscellaneous databases

    EvolutionaryTracei Q9JIW4.
    NextBioi 310917.
    PROi Q9JIW4.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi Q9JIW4.
    CleanExi MM_POLM.
    Genevestigatori Q9JIW4.

    Family and domain databases

    Gene3Di 1.10.150.110. 1 hit.
    3.30.210.10. 1 hit.
    3.40.50.10190. 1 hit.
    InterProi IPR001357. BRCT_dom.
    IPR002054. DNA-dir_DNA_pol_X.
    IPR027249. DNA/RNApol_mu.
    IPR019843. DNA_pol-X_BS.
    IPR010996. DNA_pol_b-like_N.
    IPR028207. DNA_pol_B_palm_palm.
    IPR018944. DNA_pol_lambd_fingers_domain.
    IPR022312. DNA_pol_X.
    IPR027421. DNA_pol_X_lyase_dom.
    IPR029398. PolB_thumb.
    IPR001726. TdT/Mu.
    [Graphical view ]
    Pfami PF14792. DNA_pol_B_palm. 1 hit.
    PF14791. DNA_pol_B_thumb. 1 hit.
    PF10391. DNA_pol_lambd_f. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF000817. DNA_NT. 1 hit.
    PIRSF501176. DNApol_mu. 1 hit.
    PRINTSi PR00869. DNAPOLX.
    PR00871. DNAPOLXTDT.
    SMARTi SM00483. POLXc. 1 hit.
    [Graphical view ]
    SUPFAMi SSF47802. SSF47802. 1 hit.
    SSF52113. SSF52113. 1 hit.
    PROSITEi PS50172. BRCT. 1 hit.
    PS00522. DNA_POLYMERASE_X. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    2. "DNA polymerase mu (Pol mu), homologous to TdT, could act as a DNA mutator in eukaryotic cells."
      Dominguez O., Ruiz J.F., Lain de Lera T., Garcia-Diaz M., Gonzalez M.A., Kirchhoff T., Martinez-A C., Bernad A., Blanco L.
      EMBO J. 19:1731-1742(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
      Strain: CD-1.
    3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: C57BL/6J.
    4. Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
      Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    5. "Nonoverlapping functions of DNA polymerases mu, lambda, and terminal deoxynucleotidyltransferase during immunoglobulin V(D)J recombination in vivo."
      Bertocci B., De Smet A., Weill J.C., Reynaud C.A.
      Immunity 25:31-41(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    6. "Involvement of DNA polymerase mu in the repair of a specific subset of DNA double-strand breaks in mammalian cells."
      Capp J.P., Boudsocq F., Besnard A.G., Lopez B.S., Cazaux C., Hoffmann J.S., Canitrot Y.
      Nucleic Acids Res. 35:3551-3560(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    7. Cited for: X-RAY CRYSTALLOGRAPHY (2.4 ANGSTROMS) OF 137-496 IN COMPLEX WITH DNA, MAGNESIUM-BINDING SITES, COFACTOR.

    Entry informationi

    Entry nameiDPOLM_MOUSE
    AccessioniPrimary (citable) accession number: Q9JIW4
    Secondary accession number(s): G5E840, Q9JJW9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 16, 2001
    Last sequence update: October 3, 2012
    Last modified: October 1, 2014
    This is version 112 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    DPOLM has a reduced ability to distinguish dNTP and rNTP as substrates, and elongates them on DNA primer strand with a similar efficiency. It is able to polymerize nucleotides on RNA primer strands By similarity.By similarity

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. MGD cross-references
      Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3