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P53150

- LIF1_YEAST

UniProt

P53150 - LIF1_YEAST

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Protein
Ligase-interacting factor 1
Gene
LIF1, YGL090W
Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 4 out of 5 - Experimental evidence at protein leveli

Functioni

Stabilizes DNL4. Involved in non-homologous repair of DNA double-strand breaks.1 Publication

GO - Molecular functioni

  1. DNA binding Source: InterPro
  2. chromatin binding Source: SGD
Complete GO annotation...

GO - Biological processi

  1. DNA recombination Source: InterPro
  2. double-strand break repair via nonhomologous end joining Source: SGD
Complete GO annotation...

Keywords - Biological processi

DNA damage, DNA repair

Enzyme and pathway databases

BioCyciYEAST:G3O-30590-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Ligase-interacting factor 1
Gene namesi
Name:LIF1
Ordered Locus Names:YGL090W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311: Chromosome VII

Organism-specific databases

CYGDiYGL090w.
SGDiS000003058. LIF1.

Subcellular locationi

Cytoplasm. Nucleus 1 Publication

GO - Cellular componenti

  1. DNA ligase IV complex Source: SGD
  2. cytoplasm Source: UniProtKB-SubCell
  3. nucleus Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 421421Ligase-interacting factor 1
PRO_0000084419Add
BLAST

Proteomic databases

MaxQBiP53150.
PaxDbiP53150.
PeptideAtlasiP53150.

Expressioni

Gene expression databases

GenevestigatoriP53150.

Interactioni

Subunit structurei

Interacts with the BRCT domain of DNL4 and with NEJ1. The DNL4-LIF1 complex interacts with POL4.3 Publications

Protein-protein interaction databases

BioGridi33161. 28 interactions.
DIPiDIP-5477N.
IntActiP53150. 6 interactions.
MINTiMINT-492607.
STRINGi4932.YGL090W.

Structurei

Secondary structure

Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi163 – 1675
Helixi168 – 1758
Turni176 – 1816
Helixi182 – 1898
Turni190 – 1934
Helixi194 – 20310
Turni204 – 2063
Helixi207 – 22519
Helixi226 – 2283
Turni229 – 2335

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1Z56X-ray3.92A/B1-246[»]
ProteinModelPortaliP53150.
SMRiP53150. Positions 159-235.

Miscellaneous databases

EvolutionaryTraceiP53150.

Family & Domainsi

Phylogenomic databases

eggNOGiNOG72265.
KOiK10982.
OrthoDBiEOG7CNZR9.

Family and domain databases

Gene3Di1.20.5.370. 1 hit.
InterProiIPR015381. XLF/Cernunnos.
IPR014751. XRCC4_C.
[Graphical view]
PfamiPF09302. XLF. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P53150-1 [UniParc]FASTAAdd to Basket

« Hide

MSQLTEFISC IPVVNEEQNE EDERGLCKIQ IEDGAMLETL DENSLSGLRI    50
EKMLVSEGTG IFSKSSFGIN DLRIFTGENI DEESKKYVWY ELLKMLTGHK 100
VYIASLDEKV VFTKWTCRMQ DDEVWKVVME LESSAIIRKI AELTLHPVKK 150
GEIDLFEMAD KLYKDICCVN DSYRNIKESD SSNRNRVEQL ARERELLDKL 200
LETRDERTRA MMVTLLNEKK KKIRELHEIL RQNNIKLSDD DVLDSALINT 250
EVQKPISELN SPGKRMKRRK TVVEPQNLQK KLKDTSRRRA NRKISNQSVI 300
KMEDDDFDDF QFFGLSKRPI ITAKDKLSEK YDDITSFGDD TQSISFESDS 350
SSDVQKHLVS LEDNGIQISA GRSDEDYGDI SGSESETDAS AGEKKSSNHS 400
EQSGNDREPC LQTESETDIE T 421
Length:421
Mass (Da):48,259
Last modified:October 1, 1996 - v1
Checksum:i5BEDC72059E9996F
GO

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti44 – 441S → G in AAU09724. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Z72612 Genomic DNA. Translation: CAA96796.1.
AY723807 Genomic DNA. Translation: AAU09724.1.
BK006941 Genomic DNA. Translation: DAA08016.1.
PIRiS64097.
RefSeqiNP_011425.1. NM_001180955.1.

Genome annotation databases

EnsemblFungiiYGL090W; YGL090W; YGL090W.
GeneIDi852790.
KEGGisce:YGL090W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Z72612 Genomic DNA. Translation: CAA96796.1 .
AY723807 Genomic DNA. Translation: AAU09724.1 .
BK006941 Genomic DNA. Translation: DAA08016.1 .
PIRi S64097.
RefSeqi NP_011425.1. NM_001180955.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1Z56 X-ray 3.92 A/B 1-246 [» ]
ProteinModelPortali P53150.
SMRi P53150. Positions 159-235.
ModBasei Search...

Protein-protein interaction databases

BioGridi 33161. 28 interactions.
DIPi DIP-5477N.
IntActi P53150. 6 interactions.
MINTi MINT-492607.
STRINGi 4932.YGL090W.

Proteomic databases

MaxQBi P53150.
PaxDbi P53150.
PeptideAtlasi P53150.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblFungii YGL090W ; YGL090W ; YGL090W .
GeneIDi 852790.
KEGGi sce:YGL090W.

Organism-specific databases

CYGDi YGL090w.
SGDi S000003058. LIF1.

Phylogenomic databases

eggNOGi NOG72265.
KOi K10982.
OrthoDBi EOG7CNZR9.

Enzyme and pathway databases

BioCyci YEAST:G3O-30590-MONOMER.

Miscellaneous databases

EvolutionaryTracei P53150.
NextBioi 972288.

Gene expression databases

Genevestigatori P53150.

Family and domain databases

Gene3Di 1.20.5.370. 1 hit.
InterProi IPR015381. XLF/Cernunnos.
IPR014751. XRCC4_C.
[Graphical view ]
Pfami PF09302. XLF. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  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] [Europe PMC] [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] [Europe PMC] [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] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  4. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  5. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  6. "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] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH NEJ1.
  7. "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] [Europe PMC] [Abstract]
    Cited for: INTERACTION OF THE DNL4-LIF1 COMPLEX WITH POL4.
  8. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  9. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  10. "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution."
    Holt L.J., Tuch B.B., Villen J., Johnson A.D., Gygi S.P., Morgan D.O.
    Science 325:1682-1686(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  11. "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] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.92 ANGSTROMS) OF 1-246 IN COMPLEX WITH THE TANDEM BRCT DOMAINS OF DNL4.

Entry informationi

Entry nameiLIF1_YEAST
AccessioniPrimary (citable) accession number: P53150
Secondary accession number(s): D6VU55, E9P953
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: May 14, 2014
This is version 100 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 876 molecules/cell in log phase SD medium.

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome VII
    Yeast (Saccharomyces cerevisiae) chromosome VII: entries and gene names

External Data

Dasty 3

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