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Q9JIW4

- DPOLM_MOUSE

UniProt

Q9JIW4 - DPOLM_MOUSE

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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

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
Complete GO annotation...

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-KW
Complete GO annotation...

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

CleanExiMM_POLM.
ExpressionAtlasiQ9JIW4. baseline.
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.
InParanoidiQ9JIW4.
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

        10         20         30         40         50
MLPKRRRVRA GSPHSAVASS TPPSVVRFPD VAIYLAEPRM GRSRRAFLTR
60 70 80 90 100
LARSKGFRVL DAYSSKVTHV VMEGTSAKEA ICWQKNMDAL PTGCPQPALL
110 120 130 140 150
DISWFTESMA AGQPVPEEGR HHLEVAEPRK EPPVSASMPA YACQRPSPLT
160 170 180 190 200
HHNTLLSEAL ETLAEAAGFE ANEGRLLSFS RAASVLKSLP CPVASLSQLH
210 220 230 240 250
GLPYFGEHST RVIQELLEHG TCEEVKQVRC SERYQTMKLF TQVFGVGVKT
260 270 280 290 300
ANRWYQEGLR TLDELREQPQ RLTQQQKAGL QYYQDLSTPV RRADAEALQQ
310 320 330 340 350
LIEAAVRQTL PGATVTLTGG FRRGKLQGHD VDFLITHPEE GQEVGLLPKV
360 370 380 390 400
MSCLQSQGLV LYHQYHRSHL ADSAHNLRQR SSTMDAFERS FCILGLPQPQ
410 420 430 440 450
QAALAGALPP CPTWKAVRVD LVVTPSSQFP FALLGWTGSQ FFERELRRFS
460 470 480 490
RQEKGLWLNS HGLFDPEQKR VFHATSEEDV FRLLGLKYLP PEQRNA
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.
InParanoidi Q9JIW4.
KOi K03513.

Miscellaneous databases

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

Gene expression databases

CleanExi MM_POLM.
ExpressionAtlasi Q9JIW4. baseline.
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

« Hide 'large scale' publications
  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 29, 2014
This is version 113 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