Q9JIW4 (DPOLM_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
DNA-directed DNA/RNA polymerase mu
Short name=Pol Mu
EC=2.7.7.7

Alternative name(s):
Terminal transferase

Gene names

Name:	Polm
Synonyms:	polmu

Organism

Mus musculus (Mouse) [Reference proteome]

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus › Mus

Protein attributes

Sequence length	496 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	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. Ref.5 Ref.6
Catalytic activity	Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1).
Cofactor	Magnesium. Ref.7
Subcellular location	Nucleus By similarity.
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.
Sequence similarities	Belongs to the DNA polymerase type-X family. Contains 1 BRCT domain.

Ontologies

Keywords
Biological process	DNA damage DNA recombination DNA repair
Cellular component	Nucleus
Ligand	Magnesium Metal-binding
Molecular function	DNA-directed DNA polymerase Nucleotidyltransferase Transferase
PTM	Phosphoprotein
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	B cell differentiation Inferred from mutant phenotype PubMed 15789338. Source: MGI DNA recombination Inferred from electronic annotation. Source: UniProtKB-KW DNA repair Inferred from electronic annotation. Source: UniProtKB-KW somatic hypermutation of immunoglobulin genes Inferred from mutant phenotype PubMed 15789338. Source: MGI
Cellular_component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	DNA binding Inferred from electronic annotation. Source: InterPro DNA-directed DNA polymerase activity Inferred from electronic annotation. Source: UniProtKB-KW metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 496

496

DNA-directed DNA/RNA polymerase mu

PRO_0000218788

Regions

Domain

23 – 122

100

BRCT

Region

323 – 332

10

Involved in ssDNA binding

Sites

Metal binding

241

1

Sodium; via carbonyl oxygen By similarity

Metal binding

243

1

Sodium; via carbonyl oxygen By similarity

Metal binding

330

1

Magnesium

Metal binding

332

1

Magnesium

Metal binding

420

1

Magnesium By similarity

Site

435

1

Responsible for the low discrimination between dNTP and rNTP By similarity

Amino acid modifications

Modified residue

12

1

Phosphoserine By similarity

Experimental info

Sequence conflict

18

1

A → D in AAF27552. Ref.1

Sequence conflict

386

1

A → V in CAB71154. Ref.2

Secondary structure

1

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496

Helix Strand Turn

Details...

Helix

142 – 144

3

Helix

154 – 169

16

Helix

173 – 188

16

Helix

196 – 199

4

Helix

207 – 219

13

Helix

223 – 230

8

Helix

232 – 241

10

Helix

248 – 256

9

Helix

262 – 266

5

Helix

274 – 281

8

Helix

283 – 287

5

Helix

292 – 307

16

Beta strand

314 – 317

4

Helix

319 – 322

4

Beta strand

326 – 336

11

Turn

340 – 345

6

Helix

346 – 356

11

Beta strand

360 – 366

7

Beta strand

389 – 397

9

Beta strand

414 – 423

10

Helix

429 – 437

9

Helix

440 – 454

15

Helix

477 – 483

7

Helix

491 – 493

3

Sequences

	Sequence		Length	Mass (Da)
	Q9JIW4 [UniParc]. Last modified October 3, 2012. Version 2. Checksum: D087636E30C27127	FASTA	496	55,490
	10 20 30 40 50 60 MLPKRRRVRA GSPHSAVASS TPPSVVRFPD VAIYLAEPRM GRSRRAFLTR LARSKGFRVL 70 80 90 100 110 120 DAYSSKVTHV VMEGTSAKEA ICWQKNMDAL PTGCPQPALL DISWFTESMA AGQPVPEEGR 130 140 150 160 170 180 HHLEVAEPRK EPPVSASMPA YACQRPSPLT HHNTLLSEAL ETLAEAAGFE ANEGRLLSFS 190 200 210 220 230 240 RAASVLKSLP CPVASLSQLH GLPYFGEHST RVIQELLEHG TCEEVKQVRC SERYQTMKLF 250 260 270 280 290 300 TQVFGVGVKT ANRWYQEGLR TLDELREQPQ RLTQQQKAGL QYYQDLSTPV RRADAEALQQ 310 320 330 340 350 360 LIEAAVRQTL PGATVTLTGG FRRGKLQGHD VDFLITHPEE GQEVGLLPKV MSCLQSQGLV 370 380 390 400 410 420 LYHQYHRSHL ADSAHNLRQR SSTMDAFERS FCILGLPQPQ QAALAGALPP CPTWKAVRVD 430 440 450 460 470 480 LVVTPSSQFP FALLGWTGSQ FFERELRRFS RQEKGLWLNS HGLFDPEQKR VFHATSEEDV 490 FRLLGLKYLP PEQRNA

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Two novel human and mouse DNA polymerases of the polX family." Aoufouchi S., Flatter E., Dahan A., Faili A., Bertocci B., Storck S., Delbos F., Cocea L., Gupta N., Weill J.-C., Reynaud C.-A. Nucleic Acids Res. 28:3684-3693(2000) [PubMed] [Europe PMC] [Abstract] 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]	"Lineage-specific biology revealed by a finished genome assembly of the mouse." Church D.M., Goodstadt L., Hillier L.W., Zody M.C., Goldstein S., She X., Bult C.J., Agarwala R., Cherry J.L., DiCuccio M., Hlavina W., Kapustin Y., Meric P., Maglott D., Birtle Z., Marques A.C., Graves T., Zhou S. , Teague B., Potamousis K., Churas C., Place M., Herschleb J., Runnheim R., Forrest D., Amos-Landgraf J., Schwartz D.C., Cheng Z., Lindblad-Toh K., Eichler E.E., Ponting C.P. PLoS Biol. 7:E1000112-E1000112(2009) [PubMed] [Europe PMC] [Abstract] 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]	"Structural insight into the substrate specificity of DNA Polymerase mu." Moon A.F., Garcia-Diaz M., Bebenek K., Davis B.J., Zhong X., Ramsden D.A., Kunkel T.A., Pedersen L.C. Nat. Struct. Mol. Biol. 14:45-53(2007) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.4 ANGSTROMS) OF 137-496 IN COMPLEX WITH DNA, MAGNESIUM-BINDING SITES, COFACTOR.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

AF176098 mRNA. Translation: AAF27552.1.
AJ251804 mRNA. Translation: CAB71154.1.
AL627069 Genomic DNA. No translation available.
CH466574 Genomic DNA. Translation: EDL40561.1.

IPI

IPI00312893.

RefSeq

NP_059097.2. NM_017401.2.

UniGene

Mm.260194.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2IHM	X-ray	2.40	A/B	137-496	[»]

ProteinModelPortal

Q9JIW4.

SMR

Q9JIW4. Positions 21-124, 137-496.

ModBase

Search...

PTM databases

PhosphoSite

Q9JIW4.

Proteomic databases

PRIDE

Q9JIW4.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENSMUST00000020767; ENSMUSP00000020767; ENSMUSG00000020474.

GeneID

54125.

KEGG

mmu:54125.

UCSC

uc007hxf.2. mouse.

Organism-specific databases

CTD

27434.

MGI

MGI:1860191. Polm.

Phylogenomic databases

eggNOG

COG1796.

GeneTree

ENSGT00530000063002.

HOGENOM

HOG000263600.

HOVERGEN

HBG003670.

KO

K03513.

Gene expression databases

CleanEx

MM_POLM.

Genevestigator

Q9JIW4.

GermOnline

ENSMUSG00000020474. Mus musculus.

Family and domain databases

Gene3D

1.10.150.110. 1 hit.
3.40.50.10190. 1 hit.

InterPro

IPR001357. BRCT_dom.
IPR002054. DNA-dir_DNA_pol_X.
IPR027249. DNA/RNApol_mu.
IPR019843. DNA_pol-X_BS.
IPR010996. DNA_pol_b-like_N.
IPR018944. DNA_pol_lambd_fingers_domain.
IPR022312. DNA_pol_X.
IPR027421. DNA_pol_X_lyase_dom.
IPR001726. TdT/Mu.
[Graphical view]

PANTHER

PTHR11276:SF6. PTHR11276:SF6. 1 hit.

Pfam

PF10391. DNA_pol_lambd_f. 1 hit.
[Graphical view]

PIRSF

PIRSF000817. DNA_NT. 1 hit.
PIRSF501176. DNApol_mu. 1 hit.

PRINTS

PR00869. DNAPOLX.
PR00871. DNAPOLXTDT.

SMART

SM00483. POLXc. 1 hit.
[Graphical view]

SUPFAM

SSF52113. BRCT. 1 hit.
SSF81585. DNA_pol_lambd_fingers_domain. 1 hit.
SSF47802. DNApol_B_N_like. 1 hit.

PROSITE

PS50172. BRCT. 1 hit.
PS00522. DNA_POLYMERASE_X. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

Q9JIW4.

NextBio

310917.

SOURCE

Search...

Entry information

Entry name

DPOLM_MOUSE

Accession

Primary (citable) accession number: Q9JIW4
Secondary accession number(s): G5E840, Q9JJW9

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 16, 2001
Last sequence update:	October 3, 2012
Last modified:	May 29, 2013
This is version 101 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program