Reviewed, UniProtKB/Swiss-Prot Q68G58 (APEX2_MOUSE)

Names and origin

Protein names

Recommended name:
    DNA-(apurinic or apyrimidinic site) lyase 2
    EC=4.2.99.18
Alternative name(s):
    Apurinic-apyrimidinic endonuclease 2
      Short name=AP endonuclease 2
    APEX nuclease 2

Gene names

Name:	Apex2
Synonyms:	Ape2

Organism

Mus musculus (Mouse)

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus

Protein attributes

Sequence length	516 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	May participate in both nuclear and mitochondrial post-replicative base excision repair (BER). In the nucleus functions in the PCNA-dependent BER pathway. Ref.1
Catalytic activity	The C-O-P bond 3' to the apurinic or apyrimidinic site in DNA is broken by a beta-elimination reaction, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate.
Subunit structure	Interacts with PCNA. This interaction is increased by misincorporation of uracil in nuclear DNA By similarity. Ref.1
Subcellular location	Nucleus Probable. Mitochondrion Probable. Note: Colocalized partly with PCNA in nuclear foci. Ref.1
Tissue specificity	Highly expressed in the thymus and weakly expressed in the bone marrow, spleen, eye, kidney, lung, brain and uterus. Ref.1
Sequence similarities	Belongs to the DNA repair enzymes AP/exoA family.

Ontologies

Keywords
Biological process	DNA damage DNA repair
Cellular component	Mitochondrion Nucleus
Coding sequence diversity	Alternative splicing
Molecular function	Lyase
Gene Ontology (GO)
Biological process	DNA repair Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	mitochondrial inner membrane Ref.1 Inferred from direct assay. Source: MGI nucleus Ref.1 Inferred from direct assay. Source: MGI
Molecular function	DNA binding Inferred from electronic annotation. Source: InterPro DNA-(apurinic or apyrimidinic site) lyase activity Inferred from electronic annotation. Source: EC endonuclease activity Inferred from electronic annotation. Source: InterPro zinc ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Alternative products

This entry describes 5 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q68G58-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

Isoform 2 (identifier: Q68G58-2)

The sequence of this isoform differs from the canonical sequence as follows:
     79-79: S → SECSCPSP

Note: No experimental confirmation available.

Isoform 3 (identifier: Q68G58-3)

The sequence of this isoform differs from the canonical sequence as follows:
     213-246: ECFEEDPGRKWMDGLLSNPGDEAGPHIGLFMDSY → VRFPLNHRPQFCSVHPASQNWEFGTRGSFFYGKK
     247-516: Missing.

Note: No experimental confirmation available.

Isoform 4 (identifier: Q68G58-4)

The sequence of this isoform differs from the canonical sequence as follows:
     213-266: ECFEEDPGRK...FTCWSVVSGA → LPVAACGHTN...HTASLLRPSY
     267-516: Missing.

Note: No experimental confirmation available.

Isoform 5 (identifier: Q68G58-5)

The sequence of this isoform differs from the canonical sequence as follows:
     213-260: ECFEEDPGRK...PKQQRAFTCW → LPVAACGHTN...PLKFTESPCL
     261-516: Missing.

Note: No experimental confirmation available.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 516	516	DNA-(apurinic or apyrimidinic site) lyase 2		PRO_0000200015
Natural variations
	Alternative sequence	79	1	S → SECSCPSP in isoform 2.		VSP_015346
	Alternative sequence	213 – 266	54	ECFEE…VVSGA → LPVAACGHTNLVPEWEAGPV WERTMREIMEGFCDLLHSVR IFHHHTASLLRPSY in isoform 4.		VSP_015347
	Alternative sequence	213 – 260	48	ECFEE…AFTCW → LPVAACGHTNLVPEWEAGPV WERTMREIMEVKTRFCSRPL KFTESPCL in isoform 5.		VSP_015348
	Alternative sequence	213 – 246	34	ECFEE…FMDSY → VRFPLNHRPQFCSVHPASQN WEFGTRGSFFYGKK in isoform 3.		VSP_015349
	Alternative sequence	247 – 516	270	Missing in isoform 3.		VSP_015350
	Alternative sequence	261 – 516	256	Missing in isoform 5.		VSP_015351
	Alternative sequence	267 – 516	250	Missing in isoform 4.		VSP_015352
Experimental info
	Sequence conflict	110	1	G → S in BAC38077. Ref.2
	Sequence conflict	183	1	A → P in BAB32346. Ref.2
	Sequence conflict	372	1	C → F in AAH78633. Ref.3
	Sequence conflict	433	1	V → M in AAH78633. Ref.3

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified October 11, 2004. Version 1. Checksum: ED32A88D9CEABB85	FASTA	516	57,340
	10 20 30 40 50 60 MLRVVSWNIN GIRSPLQGLA CQEPSSCPTA LRRVLDELDA DIVCLQETKV TRDVLTEPLA 70 80 90 100 110 120 IVEGYNSYFS FSRSRSGYSG VATFCKDSAT PVAAEEGLSG VFATLNGDIG CYGNMDEFTQ 130 140 150 160 170 180 EELRVLDSEG RALLTQHKIR TLEGKEKTLT LINVYCPHAD PGKPERLTFK MRFYRLLQMR 190 200 210 220 230 240 AEALLAAGSH VIILGDLNTA HRPIDHCDAS SLECFEEDPG RKWMDGLLSN PGDEAGPHIG 250 260 270 280 290 300 LFMDSYRYLH PKQQRAFTCW SVVSGARHLN YGSRLDYVLG DRALVIDTFQ ASFLLPEVMG 310 320 330 340 350 360 SDHCPVGAVL NVSCVPAKQC PALCTRFLPE FAGTQLKILR FLVPLEQEPV REQQVLQPSH 370 380 390 400 410 420 QIQAQRQPRK ACMHSTRLRK SQGGPKRKQK NLMSYFQPSS SLSQTSGVEL PTLPLVGPLT 430 440 450 460 470 480 TPKTAEEVAT ATVLEEKNKV PESKDEKGER TAFWKSMLSG PSPMPLCGGH REPCVMRTVK 490 500 510 KTGPNFGRQF YMCARPRGPP SDPSSRCNFF LWSRPS
	Isoform 2. Checksum: 50712632B2D818F7	FASTA	523	58,043
	10 20 30 40 50 60 MLRVVSWNIN GIRSPLQGLA CQEPSSCPTA LRRVLDELDA DIVCLQETKV TRDVLTEPLA 70 80 90 100 110 120 IVEGYNSYFS FSRSRSGYSE CSCPSPGVAT FCKDSATPVA AEEGLSGVFA TLNGDIGCYG 130 140 150 160 170 180 NMDEFTQEEL RVLDSEGRAL LTQHKIRTLE GKEKTLTLIN VYCPHADPGK PERLTFKMRF 190 200 210 220 230 240 YRLLQMRAEA LLAAGSHVII LGDLNTAHRP IDHCDASSLE CFEEDPGRKW MDGLLSNPGD 250 260 270 280 290 300 EAGPHIGLFM DSYRYLHPKQ QRAFTCWSVV SGARHLNYGS RLDYVLGDRA LVIDTFQASF 310 320 330 340 350 360 LLPEVMGSDH CPVGAVLNVS CVPAKQCPAL CTRFLPEFAG TQLKILRFLV PLEQEPVREQ 370 380 390 400 410 420 QVLQPSHQIQ AQRQPRKACM HSTRLRKSQG GPKRKQKNLM SYFQPSSSLS QTSGVELPTL 430 440 450 460 470 480 PLVGPLTTPK TAEEVATATV LEEKNKVPES KDEKGERTAF WKSMLSGPSP MPLCGGHREP 490 500 510 520 CVMRTVKKTG PNFGRQFYMC ARPRGPPSDP SSRCNFFLWS RPS
	Isoform 3. Checksum: 194A612EF3CB1D8F	FASTA	246	27,389
	10 20 30 40 50 60 MLRVVSWNIN GIRSPLQGLA CQEPSSCPTA LRRVLDELDA DIVCLQETKV TRDVLTEPLA 70 80 90 100 110 120 IVEGYNSYFS FSRSRSGYSG VATFCKDSAT PVAAEEGLSG VFATLNGDIG CYGNMDEFTQ 130 140 150 160 170 180 EELRVLDSEG RALLTQHKIR TLEGKEKTLT LINVYCPHAD PGKPERLTFK MRFYRLLQMR 190 200 210 220 230 240 AEALLAAGSH VIILGDLNTA HRPIDHCDAS SLVRFPLNHR PQFCSVHPAS QNWEFGTRGS FFYGKK
	Isoform 4. Checksum: 7EBE161284108FD5	FASTA	266	29,575
	10 20 30 40 50 60 MLRVVSWNIN GIRSPLQGLA CQEPSSCPTA LRRVLDELDA DIVCLQETKV TRDVLTEPLA 70 80 90 100 110 120 IVEGYNSYFS FSRSRSGYSG VATFCKDSAT PVAAEEGLSG VFATLNGDIG CYGNMDEFTQ 130 140 150 160 170 180 EELRVLDSEG RALLTQHKIR TLEGKEKTLT LINVYCPHAD PGKPERLTFK MRFYRLLQMR 190 200 210 220 230 240 AEALLAAGSH VIILGDLNTA HRPIDHCDAS SLLPVAACGH TNLVPEWEAG PVWERTMREI 250 260 MEGFCDLLHS VRIFHHHTAS LLRPSY
	Isoform 5. Checksum: 0186A39DE091BA93	FASTA	260	28,880
	10 20 30 40 50 60 MLRVVSWNIN GIRSPLQGLA CQEPSSCPTA LRRVLDELDA DIVCLQETKV TRDVLTEPLA 70 80 90 100 110 120 IVEGYNSYFS FSRSRSGYSG VATFCKDSAT PVAAEEGLSG VFATLNGDIG CYGNMDEFTQ 130 140 150 160 170 180 EELRVLDSEG RALLTQHKIR TLEGKEKTLT LINVYCPHAD PGKPERLTFK MRFYRLLQMR 190 200 210 220 230 240 AEALLAAGSH VIILGDLNTA HRPIDHCDAS SLLPVAACGH TNLVPEWEAG PVWERTMREI 250 260 MEVKTRFCSR PLKFTESPCL

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Characterization of the genomic structure and expression of the mouse Apex2 gene." Ide Y., Tsuchimoto D., Tominaga Y., Iwamoto Y., Nakabeppu Y. Genomics 81:47-57(2003) [PubMed: 12573260] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA] (ISOFORM 1), FUNCTION, INTERACTION WITH PCNA, SUBCELLULAR LOCATION, TISSUE SPECIFICITY. Strain: 129/Sv and C57BL/6. Tissue: B-cell.
[2]	"The transcriptional landscape of the mammalian genome." Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J. , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y. Science 309:1559-1563(2005) [PubMed: 16141072] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1/2/4/5). Strain: NOD. Tissue: Adipose tissue, Head and Thymus.
[3]	"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)." The MGC Project Team Genome Res. 14:2121-2127(2004) [PubMed: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 3). Strain: FVB/N-3. Tissue: Mammary tumor.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AB072498 mRNA. Translation: BAB88654.1. AB085235 Genomic DNA. Translation: BAC11807.1. AK021248 mRNA. Translation: BAB32346.1. AK040145 mRNA. Translation: BAC30522.1. AK050858 mRNA. Translation: BAC34436.1. AK080916 mRNA. Translation: BAC38077.1. AK081677 mRNA. Translation: BAC38287.1. AK088918 mRNA. Translation: BAC40652.1. BC026769 mRNA. Translation: AAH26769.1. BC078633 mRNA. Translation: AAH78633.1.
IPI	IPI00225176. IPI00473955. IPI00473962. IPI00474999. IPI00828973.
RefSeq	NP_084219.1.
UniGene	Mm.440275
3D structure databases
SMR	Q68G58. Positions 1-311.
ModBase	Search...
Protein-protein interaction databases
STRING	Q68G58.
PTM databases
PhosphoSite	Q68G58.
Proteomic databases
PRIDE	Q68G58.
Genome annotation databases
Ensembl	ENSMUST00000026303; ENSMUSP00000026303; ENSMUSG00000025269; Mus musculus. [Genome view] ENSMUST00000112720; ENSMUSP00000108340; ENSMUSG00000025269; Mus musculus. [Genome view] ENSMUST00000112721; ENSMUSP00000108341; ENSMUSG00000025269; Mus musculus. [Genome view] ENSMUST00000112727; ENSMUSP00000108347; ENSMUSG00000025269; Mus musculus. [Genome view]
GeneID	77622.
KEGG	mmu:77622.
UCSC	uc009uoi.1. mouse. uc009uom.1. mouse. uc009uon.1. mouse.
Organism-specific databases
CTD	77622.
MGI	MGI:1924872. Apex2.
Phylogenomic databases
HOVERGEN	Q68G58.
PhylomeDB	Q68G58.
Enzyme and pathway databases
BRENDA	4.2.99.18. 244.
Gene expression databases
ArrayExpress	Q68G58.
Bgee	Q68G58.
CleanEx	MM_APEX2.
Genevestigator	Q68G58.
GermOnline	ENSMUSG00000025269. Mus musculus.
Family and domain databases
InterPro	IPR020847. AP_endonuclease_F1_BS. IPR005135. Endo/exonuclease/phosphatase. IPR004808. exoDNase_III. [Graphical view]
PANTHER	PTHR22748. ExoIII_xth. 1 hit.
Pfam	PF03372. Exo_endo_phos. 1 hit. [Graphical view]
TIGRFAMs	TIGR00633. xth. 1 hit.
PROSITE	PS00726. AP_NUCLEASE_F1_1. 1 hit. PS00727. AP_NUCLEASE_F1_2. False negative. PS00728. AP_NUCLEASE_F1_3. False negative. PS51435. AP_NUCLEASE_F1_4. 1 hit. [Graphical view]
ProtoNet	Search...
Other Resources
NextBio	347242.
SOURCE	Search...

Entry information

Entry name

APEX2_MOUSE

Accession

Primary (citable) accession number: Q68G58
Secondary accession number(s): Q8BJP7 , Q8BTR7, Q8BUZ2, Q8BYE9, Q8R018, Q8R328, Q9CS12

Entry history

Integrated into UniProtKB/Swiss-Prot:	August 30, 2005
Last sequence update:	October 11, 2004
Last modified:	February 9, 2010
This is version 50 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)