Q9LPD2 (GENL1_ARATH) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Flap endonuclease GEN-like 1
EC=3.1.-.-

Gene names

Name:	GEN1
Ordered Locus Names:	At1g01880
ORF Names:	F22M8.2

Organism

Arabidopsis thaliana (Mouse-ear cress)

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis

Protein attributes

Sequence length	599 AA.
Sequence status	Complete.
Protein existence	Evidence at transcript level

General annotation (Comments)

Function	Endonuclease which cleaves flap structures at the junction between single-stranded DNA and double-stranded DNA By similarity.
Cofactor	Binds 2 magnesium ions per subunit. They probably participate in the reaction catalyzed by the enzyme. May bind an additional third magnesium ion after substrate binding By similarity.
Subcellular location	Nucleus By similarity.
Sequence similarities	Belongs to the XPG/RAD2 endonuclease family. GEN subfamily.
Sequence caution	The sequence AAF76467.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
Biological process	DNA damage DNA repair
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing
Ligand	Magnesium Metal-binding
Molecular function	Endonuclease Hydrolase Nuclease
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	DNA repair Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Alternative products

This entry describes 1 isoform produced by alternative splicing. [Select]

Note: A number of isoforms are produced. According to EST sequences.

Isoform 1 (identifier: Q9LPD2-1)

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.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 599	599	Flap endonuclease GEN-like 1		PRO_0000315622
Regions
	Region	1 – 96	96	N-domain
	Region	128 – 217	90	I-domain
Sites
	Metal binding	31	1	Magnesium 1 By similarity
	Metal binding	75	1	Magnesium 1 By similarity
	Metal binding	140	1	Magnesium 1 By similarity
	Metal binding	142	1	Magnesium 1 By similarity
	Metal binding	161	1	Magnesium 2 By similarity
	Metal binding	163	1	Magnesium 2 By similarity
	Metal binding	213	1	Magnesium 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified November 16, 2011. Version 3. Checksum: 69086D368EED30A7	FASTA	599	67,193
	10 20 30 40 50 60 MGVGGNFWDL LRPYAQQQGF DFLRNKRVAV DLSFWIVQHE TAVKGFVLKP HLRLTFFRTI 70 80 90 100 110 120 NLFSKFGAYP VFVVDGTPSP LKSQARISRF FRSSGIDTCN LPVIKDGVSV ERNKLFSEWV 130 140 150 160 170 180 RECVELLELL GIPVLKANGE AEALCAQLNS QGFVDACITP DSDAFLFGAM CVIKDIKPNS 190 200 210 220 230 240 REPFECYHMS HIESGLGLKR KHLIAISLLV GNDYDSGGVL GIGVDKALRI VREFSEDQVL 250 260 270 280 290 300 ERLQDIGNGL QPAVPGGIKS GDDGEEFRSE MKKRSPHCSR CGHLGSKRTH FKSSCEHCGC 310 320 330 340 350 360 DSGCIKKPLG FRCECSFCSK DRDLREQKKT NDWWIKVCDK IALAPEFPNR KIIELYLSDG 370 380 390 400 410 420 LMTGDGSSMS WGTPDTGMLV DLMVFKLHWD PSYVRKMLLP MLSTIYLREK ARNNTGYALL 430 440 450 460 470 480 CDQYEFHSIK CIKTRYGHQS FVIRWRKPKS TSGYSHSHSE PEESIVVLEE EEESVDPLDG 490 500 510 520 530 540 LNEPQVQNDN GDCFLLTDEC IGLVQSAFPD ETEHFLHEKK LRESKKKNVS EEETATPRAT 550 560 570 580 590 TMGVQRSITD FYRSAKKAAA GQSIETGGSS KASAEKKRQA TSTSSSNLTK SVRRRLLFG

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana." Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O., Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E., Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K. , Conn L., Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P., Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D., Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J., Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L., Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A., Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A., Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M., Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M., Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P., Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D., Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D., Yu G., Fraser C.M., Venter J.C., Davis R.W. Nature 408:816-820(2000) [PubMed: 11130712] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
[2]	The Arabidopsis Information Resource (TAIR) Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: cv. Columbia.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AC020622 Genomic DNA. Translation: AAF76467.1. Sequence problems. CP002684 Genomic DNA. Translation: AEE27345.1.
IPI	IPI00545811.
PIR	F86150.
RefSeq	NP_171691.2. NM_100069.2.
UniGene	At.51453.
3D structure databases
HSSP	HSSP built from PDB template 1UL1 based on UniProtKB P39748.
ProteinModelPortal	Q9LPD2.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q9LPD2. 3 interactions.
STRING	Q9LPD2.
Proteomic databases
PRIDE	Q9LPD2.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	837373.
GenomeReviews	Gene locus AT1G01880 in contig CT485782_GR.
Organism-specific databases
TAIR	At1g01880.
Phylogenomic databases
eggNOG	KOG2519.
GeneTree	EPGT00070000030148.
HOGENOM	HBG319665.
InParanoid	Q9LPD2.
PhylomeDB	Q9LPD2.
Gene expression databases
Genevestigator	Q9LPD2.
Family and domain databases
InterPro	IPR020045. 5-3_exonuclease_C. IPR008918. HhH2. IPR006086. XPG/RAD2_endonuclease. IPR006085. XPG_DNA_repair_N. IPR006084. XPGC_Rad_DNA_repair. [Graphical view]
PANTHER	PTHR11081. XPGC_Rad. 1 hit.
Pfam	PF00867. XPG_I. 1 hit. PF00752. XPG_N. 1 hit. [Graphical view]
PRINTS	PR00853. XPGRADSUPER.
SMART	SM00279. HhH2. 1 hit. SM00484. XPGI. 1 hit. SM00485. XPGN. 1 hit. [Graphical view]
SUPFAM	SSF47807. 5_3_exo_C. 1 hit.
PROSITE	PS00841. XPG_1. False negative. PS00842. XPG_2. False negative. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

GENL1_ARATH

Accession

Primary (citable) accession number: Q9LPD2
Secondary accession number(s): F4HU72

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 15, 2008
Last sequence update:	November 16, 2011
Last modified:	January 25, 2012
This is version 54 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Plant Protein Annotation Program