Reviewed, UniProtKB/Swiss-Prot P53150 (LIF1_YEAST)

Names and origin

Protein names

Recommended name:
    Ligase-interacting factor 1

Gene names

Name:	LIF1
Ordered Locus Names:	YGL090W

Organism

Saccharomyces cerevisiae (Baker's yeast) [Complete proteome]

Taxonomic identifier

4932 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces

Protein attributes

Sequence length	421 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Stabilizes DNL4. Involved in non-homologous repair of DNA double-strand breaks. Ref.1
Subunit structure	Interacts with the BRCT domain of DNL4 and with NEJ1. The DNL4-LIF1 complex interacts with POL4. Ref.1 Ref.4 Ref.5
Subcellular location	Cytoplasm. Nucleus.
Miscellaneous	Present with 876 molecules/cell in log phase SD medium. Ref.7

Ontologies

Keywords
Biological process	DNA damage DNA repair
Cellular component	Cytoplasm Nucleus
PTM	Phosphoprotein
Technical term	3D-structure Complete proteome
Gene Ontology (GO)
Biological process	double-strand break repair via nonhomologous end joining Ref.1 Inferred from direct assay. Source: SGD
Cellular component	DNA ligase IV complex Inferred from physical interaction. Source: SGD cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	chromatin binding Inferred from direct assay. Source: SGD protein binding Ref.4 Inferred from physical interaction. Source: IntAct
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
	P38799	1	EBI-23865,EBI-24593
DNL4	Q08387	2	EBI-23865,EBI-5983
NEJ1	Q06148	2	EBI-23865,EBI-34047

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 421

421

Ligase-interacting factor 1

PRO_0000084419

Amino acid modifications

Modified residue

261

1

Phosphoserine Ref.8

Secondary structure

1

.

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.

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.

.

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.

.

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421

Helix Strand Turn

Details...

Helix

163 – 167

5

Helix

168 – 175

8

Turn

176 – 181

6

Helix

182 – 189

8

Turn

190 – 193

4

Helix

194 – 203

10

Turn

204 – 206

3

Helix

207 – 225

19

Helix

226 – 228

3

Turn

229 – 233

5

Sequences

	Sequence		Length	Mass (Da)
	P53150-1 [UniParc]. Last modified October 1, 1996. Version 1. Checksum: 5BEDC72059E9996F	FASTA	421	48,259
	10 20 30 40 50 60 MSQLTEFISC IPVVNEEQNE EDERGLCKIQ IEDGAMLETL DENSLSGLRI EKMLVSEGTG 70 80 90 100 110 120 IFSKSSFGIN DLRIFTGENI DEESKKYVWY ELLKMLTGHK VYIASLDEKV VFTKWTCRMQ 130 140 150 160 170 180 DDEVWKVVME LESSAIIRKI AELTLHPVKK GEIDLFEMAD KLYKDICCVN DSYRNIKESD 190 200 210 220 230 240 SSNRNRVEQL ARERELLDKL LETRDERTRA MMVTLLNEKK KKIRELHEIL RQNNIKLSDD 250 260 270 280 290 300 DVLDSALINT EVQKPISELN SPGKRMKRRK TVVEPQNLQK KLKDTSRRRA NRKISNQSVI 310 320 330 340 350 360 KMEDDDFDDF QFFGLSKRPI ITAKDKLSEK YDDITSFGDD TQSISFESDS SSDVQKHLVS 370 380 390 400 410 420 LEDNGIQISA GRSDEDYGDI SGSESETDAS AGEKKSSNHS EQSGNDREPC LQTESETDIE T

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Saccharomyces cerevisiae LIF1: a function involved in DNA double-strand break repair related to mammalian XRCC4." Herrmann G., Lindahl T., Schar P. EMBO J. 17:4188-4198(1998) [PubMed: 9670033] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION, INTERACTION WITH DNL4.
[2]	"Sequence analysis of 203 kilobases from Saccharomyces cerevisiae chromosome VII." Rieger M., Brueckner M., Schaefer M., Mueller-Auer S. Yeast 13:1077-1090(1997) [PubMed: 9290212] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[3]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome VII." Tettelin H., Agostoni-Carbone M.L., Albermann K., Albers M., Arroyo J., Backes U., Barreiros T., Bertani I., Bjourson A.J., Brueckner M., Bruschi C.V., Carignani G., Castagnoli L., Cerdan E., Clemente M.L., Coblenz A., Coglievina M., Coissac E. , Defoor E., Del Bino S., Delius H., Delneri D., de Wergifosse P., Dujon B., Durand P., Entian K.-D., Eraso P., Escribano V., Fabiani L., Fartmann B., Feroli F., Feuermann M., Frontali L., Garcia-Gonzalez M., Garcia-Saez M.I., Goffeau A., Guerreiro P., Hani J., Hansen M., Hebling U., Hernandez K., Heumann K., Hilger F., Hofmann B., Indge K.J., James C.M., Klima R., Koetter P., Kramer B., Kramer W., Lauquin G., Leuther H., Louis E.J., Maillier E., Marconi A., Martegani E., Mazon M.J., Mazzoni C., McReynolds A.D.K., Melchioretto P., Mewes H.-W., Minenkova O., Mueller-Auer S., Nawrocki A., Netter P., Neu R., Nombela C., Oliver S.G., Panzeri L., Paoluzi S., Plevani P., Portetelle D., Portillo F., Potier S., Purnelle B., Rieger M., Riles L., Rinaldi T., Robben J., Rodrigues-Pousada C., Rodriguez-Belmonte E., Rodriguez-Torres A.M., Rose M., Ruzzi M., Saliola M., Sanchez-Perez M., Schaefer B., Schaefer M., Scharfe M., Schmidheini T., Schreer A., Skala J., Souciet J.-L., Steensma H.Y., Talla E., Thierry A., Vandenbol M., van der Aart Q.J.M., Van Dyck L., Vanoni M., Verhasselt P., Voet M., Volckaert G., Wambutt R., Watson M.D., Weber N., Wedler E., Wedler H., Wipfli P., Wolf K., Wright L.F., Zaccaria P., Zimmermann M., Zollner A., Kleine K. Nature 387:81-84(1997) [PubMed: 9169869] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 96604 / S288c / FY1679.
[4]	"NHEJ regulation by mating type is exercised through a novel protein, Lif2p, essential to the ligase IV pathway." Frank-Vaillant M., Marcand S. Genes Dev. 15:3005-3012(2001) [PubMed: 11711435] [Abstract] Cited for: INTERACTION WITH NEJ1.
[5]	"A physical and functional interaction between yeast Pol4 and Dnl4-Lif1 links DNA synthesis and ligation in nonhomologous end joining." Tseng H.-M., Tomkinson A.E. J. Biol. Chem. 277:45630-45637(2002) [PubMed: 12235149] [Abstract] Cited for: INTERACTION OF THE DNL4-LIF1 COMPLEX WITH POL4.
[6]	"Global analysis of protein localization in budding yeast." Huh W.-K., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W., Weissman J.S., O'Shea E.K. Nature 425:686-691(2003) [PubMed: 14562095] [Abstract] Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
[7]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed: 14562106] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[8]	"Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases." Smolka M.B., Albuquerque C.P., Chen S.H., Zhou H. Proc. Natl. Acad. Sci. U.S.A. 104:10364-10369(2007) [PubMed: 17563356] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-261, MASS SPECTROMETRY.
[9]	"Structure of an Xrcc4-DNA ligase IV yeast ortholog complex reveals a novel BRCT interaction mode." Dore A.S., Furnham N., Davies O.R., Sibanda B.L., Chirgadze D.Y., Jackson S.P., Pellegrini L., Blundell T.L. DNA Repair 5:362-368(2006) [PubMed: 16388993] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (3.92 ANGSTROMS) OF 1-246 IN COMPLEX WITH THE TANDEM BRCT DOMAINS OF DNL4.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBLGenBankDDBJ

Z72612 Genomic DNA. Translation: CAA96796.1.

PIR

S64097.

RefSeq

NP_011425.1.

3D structure databases

PDBPDBe

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1Z56	X-ray	3.92	A/B	1-246	[»]

ModBase

Search...

Protein-protein interaction databases

DIP

DIP:5477N.

IntAct

P53150. 11 interactions.

STRING

P53150.

Proteomic databases

PeptideAtlas

P53150.

PRIDE

P53150.

Genome annotation databases

Ensembl

YGL090W; YGL090W; YGL090W; Saccharomyces cerevisiae. [Genome view]

GeneID

852790.

KEGG

sce:YGL090W.

NMPDR

fig|4932.3.peg.2530.

Organism-specific databases

CYGD

YGL090w.

SGD

S000003058. LIF1.

Phylogenomic databases

OrthoDB

EOG9S1VQQ

Gene expression databases

ArrayExpress

P53150.

Genevestigator

P53150.

GermOnline

YGL090W. Saccharomyces cerevisiae.

Family and domain databases

InterPro

IPR015381. XLF/Cernunnos.
[Graphical view]

Pfam

PF09302. XLF. 1 hit.
[Graphical view]

ProtoNet

Search...

Other Resources

NextBio

972288.

Entry information

Entry name

LIF1_YEAST

Accession

Primary (citable) accession number: P53150

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 1, 1996
Last sequence update:	October 1, 1996
Last modified:	November 24, 2009
This is version 67 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

FPAP (Fungal Proteome Annotation Project)