Q9QZD4 (XPF_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
DNA repair endonuclease XPF
EC=3.1.-.-

Alternative name(s):
DNA excision repair protein ERCC-4

Gene names

Name:

Ercc4

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	917 AA.
Sequence status	Complete.
Protein existence	Evidence at transcript level

General annotation (Comments)

Function	Structure-specific DNA repair endonuclease responsible for the 5-prime incision during DNA repair. Involved in homologous recombination that assists in removing interstrand cross-link By similarity.
Cofactor	Magnesium By similarity.
Subunit structure	Heterodimer composed of ERCC1 and XPF/ERCC4. Interacts with EME1. Interacts with SLX4/BTBD12; this interaction is direct and links the ERCC1-XPF/ERCC1 complex to SLX4, which may coordinate the action of the structure-specific endonuclease during DNA repair By similarity.
Subcellular location	Nucleus By similarity.
Sequence similarities	Belongs to the XPF family. Contains 1 ERCC4 domain.
Sequence caution	The sequence AAH26792.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	DNA damage DNA repair
Cellular component	Nucleus
Domain	Repeat
Ligand	DNA-binding Magnesium
Molecular function	Endonuclease Hydrolase Nuclease
PTM	Acetylation
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	UV protection Inferred from mutant phenotype PubMed 14729965. Source: MGI double-strand break repair via homologous recombination Inferred from Biological aspect of Ancestor. Source: RefGenome meiotic mismatch repair Inferred from Biological aspect of Ancestor. Source: RefGenome negative regulation of telomere maintenance Inferred from electronic annotation. Source: Compara nucleotide-excision repair, DNA incision, 3'-to lesion Inferred from electronic annotation. Source: Compara nucleotide-excision repair, DNA incision, 5'-to lesion Inferred from Biological aspect of Ancestor. Source: RefGenome resolution of meiotic recombination intermediates Inferred from Biological aspect of Ancestor. Source: RefGenome telomere maintenance via telomere shortening Inferred from electronic annotation. Source: Compara
Cellular_component	nuclear chromosome, telomeric region Inferred from electronic annotation. Source: Compara nucleotide-excision repair factor 1 complex Inferred from Biological aspect of Ancestor. Source: RefGenome transcription factor TFIID complex Inferred from direct assay PubMed 22323595. Source: MGI
Molecular_function	TFIID-class transcription factor binding Inferred from direct assay PubMed 22323595. Source: MGI damaged DNA binding Inferred from electronic annotation. Source: Compara single-stranded DNA binding Inferred from Biological aspect of Ancestor. Source: RefGenome single-stranded DNA specific endodeoxyribonuclease activity Inferred from Biological aspect of Ancestor. Source: RefGenome
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 917	917	DNA repair endonuclease XPF		PRO_0000198854
Regions
	Domain	684 – 764	81	ERCC4
	Region	233 – 254	22	Leucine-zipper 1
	Region	270 – 298	29	Leucine-zipper 2
	Region	618 – 917	300	Interaction with EME1 and ERCC1 By similarity
	Motif	487 – 492	6	Nuclear localization signal Potential
Amino acid modifications
	Modified residue	289	1	N6-acetyllysine By similarity
Experimental info
	Sequence conflict	30	1	D → N in AAF03157. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	Q9QZD4 [UniParc]. Last modified May 5, 2009. Version 3. Checksum: 2206DC264BC4E233	FASTA	917	103,690
	10 20 30 40 50 60 MEPGLSGERR SMAPLLEYER QQVLELLDSD GLVVCARGLG TDRLLYHFLR LHCHPACLVL 70 80 90 100 110 120 VLNTQPAEEE YFINQLKIEG VEHLPRRVTN EIASNSRYEV YTQGGIIFAT SRILVVDFLT 130 140 150 160 170 180 GRIPSDLITG ILVYRAHRII ESCQEAFILR LFRQKNKRGF IKAFTDNAVA FDTGFCHVER 190 200 210 220 230 240 VMRNLFVRKL YLWPRFHVAV NSFLEQHKPE VVEIHVSMTP AMLAIQTAIL DILNACLKEL 250 260 270 280 290 300 KCHNPSLEVE DLSLENALGK PFDKTIRHYL DPLWHQLGAK TKSLVQDLKI LRTLLQYLSQ 310 320 330 340 350 360 YDCVTFLNLL ESLRATEKVF GQNSGWLFLD ASTSMFVNAR ARVYRVPDVK LNKKAKTSEK 370 380 390 400 410 420 TSSPEVQETK KELVLESNPK WEALTDVLKE IEAENKESEA LGGPGRVLIC ASDDRTCCQL 430 440 450 460 470 480 RDYLSAGAET FLLRLYRKTF EKDGKAEEVW VNVRKGDGPK RTTKSDKRPK AAPNKERASA 490 500 510 520 530 540 KRGAPLKRKK QELTLTQVLG SAEEPPEDKA LEEDLCRQTS SSPEGCGVEI KRESFDLNVS 550 560 570 580 590 600 SDAAYGILKE PLTIIHPLLG CSDPYALTRV LHEVEPRYVV LYDAELTFVR QLEIYRASRP 610 620 630 640 650 660 GKPLRVYFLI YGGSTEEQRY LTALRKEKEA FEKLIREKAS MVVPEEREGR DETNLDLARG 670 680 690 700 710 720 SAALDAPTDT RKAGGQEQNG TQSSIVVDMR EFRSELPSLI HRRGIDIEPV TLEVGDYILT 730 740 750 760 770 780 PELCVERKSV SDLIGSLHSG RLYSQCLAMS RYYRRPVLLI EFDPSKPFSL APRGAFFQEM 790 800 810 820 830 840 SSSDVSSKLT LLTLHFPRLR LLWCPSPHAT AELFEELKQN KPQPDAATAM AITADSETLP 850 860 870 880 890 900 ESDRYNPGPQ DFVLKMPGVN AKNCRSLMNQ VKNIAELATL SLERLTTILG HSGNAKQLHD 910 FLHTAYADLV SKGRVRK

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Characterization of the mouse xpf DNA repair gene and differential expression during spermatogenesis." Shannon M., Lamerdin J.E., Richardson L., McCutchen-Maloney S.L., Hwang M.H., Handel M.A., Stubbs L., Thelen M.P. Genomics 62:427-435(1999) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[2]	"Sequence analysis of a mouse BAC containing the DNA repair gene Ercc-4 (XPF)." Lamerdin J.E., McCready P.M., Skowronski E., Adamson A.W., Burkhart-Schultz K., Gordon L., Kyle A., Ramirez M., Stilwagen S., Phan H., Velasco N., Garnes J., Danganan L., Poundstone P., Christensen M., Georgescu A., Avila J., Liu S. , Attix C., Andreise T., Trankheim M., Amico-Keller G., Coefield J., Duarte S., Lucas S., Bruce R., Thomas P., Quan G., Kronmiller B., Arellano A., Montgomery M., Ow D., Nolan M., Trong S., Kobayashi A., Olsen A.O., Carrano A.V. Submitted (FEB-1998) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[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] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 5-917. Tissue: Salivary gland.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AF189285 mRNA. Translation: AAF03157.1. AC004155 Genomic DNA. Translation: AAC03240.1. BC026792 mRNA. Translation: AAH26792.1. Different initiation.
IPI	IPI00137263.
RefSeq	NP_056584.2. NM_015769.2.
UniGene	Mm.287837.
3D structure databases
ProteinModelPortal	Q9QZD4.
SMR	Q9QZD4. Positions 677-819, 835-917.
ModBase	Search...
PTM databases
PhosphoSite	Q9QZD4.
Proteomic databases
PaxDb	Q9QZD4.
PRIDE	Q9QZD4.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENSMUST00000023206; ENSMUSP00000023206; ENSMUSG00000022545.
GeneID	50505.
KEGG	mmu:50505.
UCSC	uc007yfx.2. mouse.
Organism-specific databases
CTD	2072.
MGI	MGI:1354163. Ercc4.
Phylogenomic databases
eggNOG	COG1948.
GeneTree	ENSGT00390000004394.
HOGENOM	HOG000202204.
HOVERGEN	HBG051500.
InParanoid	Q9QZD4.
KO	K10848.
OMA	QQSIVVD.
OrthoDB	EOG4T1HKT.
Gene expression databases
ArrayExpress	Q9QZD4.
Bgee	Q9QZD4.
Genevestigator	Q9QZD4.
GermOnline	ENSMUSG00000022545. Mus musculus.
Family and domain databases
Gene3D	3.40.50.10130. 1 hit.
InterPro	IPR020819. DNA_repair_nuc_XPF/helicase. IPR006166. ERCC4_domain. IPR006167. Rad1. IPR011335. Restrct_endonuc-II-like. IPR010994. RuvA_2-like. [Graphical view]
Pfam	PF02732. ERCC4. 1 hit. [Graphical view]
SMART	SM00891. ERCC4. 1 hit. [Graphical view]
SUPFAM	SSF52980. Restrict_endonuc_II-like_core. 1 hit. SSF47781. RuvA_2_like. 1 hit.
TIGRFAMs	TIGR00596. rad1. 1 hit.
ProtoNet	Search...
Other
NextBio	307508.
SOURCE	Search...

Entry information

Entry name

XPF_MOUSE

Accession

Primary (citable) accession number: Q9QZD4
Secondary accession number(s): O54810, Q8R0I3

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 13, 2004
Last sequence update:	May 5, 2009
Last modified:	May 1, 2013
This is version 93 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program