Protein Overview: YKU80

General Information:
Name(s) found:	YKU80 / YMR106C [SGD]
Description(s) found: SHOW ONLY BEST	gi\|817864\|emb\|CAA89742.1\| unknown [Saccharomyces cerevisiae] [NCBI NR] gi\|6323753\|ref\|NP_013824.1\| Subunit of the telomeric Ku complex (Yku70p-Yku80p), involved in telomere length maintenance, structure and telomere position effect; relocates to sites of double-strand cleavage to promote nonhomologous end joining during DSB [NCBI NR] gi\|2498435\|sp\|Q04437.1\|KU80_YEAST RecName: Full=ATP-dependent DNA helicase II subunit 2; AltName: Full=ATP-dependent DNA helicase II subunit Ku80; AltName: Full=Yeast Ku80; AltName: Full=High affinity DNA-binding factor subunit 2 [NCBI NR] gi\|112362679\|emb\|CAL35972.1\| HDF2 protein [Saccharomyces cerevisiae] [NCBI NR] gi\|112362675\|emb\|CAL35974.1\| HDF2 protein [Saccharomyces cerevisiae] [NCBI NR] gi\|112362673\|emb\|CAL35975.1\| HDF2 protein [Saccharomyces cerevisiae] [NCBI NR] gi\|112362669\|emb\|CAL35977.1\| HDF2 protein [Saccharomyces cerevisiae] [NCBI NR] gi\|112362667\|emb\|CAL35978.1\| HDF2 protein [Saccharomyces cerevisiae] [NCBI NR] gi\|112362665\|emb\|CAL35979.1\| HDF2 protein [Saccharomyces cerevisiae] [NCBI NR] gi\|112362663\|emb\|CAL35980.1\| HDF2 protein [Saccharomyces cerevisiae] [NCBI NR] gi\|112362659\|emb\|CAL35982.1\| HDF2 protein [Saccharomyces cerevisiae] [NCBI NR] pir\|\|S54567 hypothetical protein YMR106c - yeast (Saccharomyces cerevisiae) [NCBI NR] ATP-dependent DNA helicase II subunit 2 OS=Saccharomyces cerevisiae GN=YKU80 PE=1 SV=1 [Swiss-Prot] YKU80 Component of DNA end-joining repair pathway [mips] Subunit of the telomeric Ku complex (Yku70p-Yku80p), involved in telomere length maintenance, structure and telomere position effect; relocates to sites of double-strand cleavage to promote nonhomologous end joining during DSB repair [SGD] YKU80, Chr XIII from 478300-480189, reverse complement [yeast_orfs2] Chr XIII from 478300-480189, reverse complement [yeastorf3.fasta] Chr XIII from 480189-478300, reverse complement [yeastorf5.fasta] (Q04437) High affinity DNA-binding factor subunit 2 (KU80 homolog) [4932.FASTACCERV.txt] YKU80 SGDID:S0004712, Chr XIII from 480189-478300, reverse complement, Verified ORF [yeastflysequest.fasta] Forms heterodimer with Yku70p known as Ku, binds chromosome ends and is involved in maintaining normal telomere length and structure, in addition to participating in the formation of silent chromatin at telomere-proximal genes [Saccharomyces cerevisiae]g [nrdb_11152004_Chlamydomonas] (Q04437) Yeast Ku80 protein (High affinity DNA-binding factor subunit 2) [cerv4932.FASTAC] YKU80 SGDID:S000004712, Chr XIII from 480189-478300, reverse complement, Verified ORF, "Subunit of the telomeric Ku complex (Yku70p-Yku80p), involved in telomere length maintenance, structure and telomere position effect; relocates to sites of double-stra [SGD_S-cerevisiae_na_12-16-2005_con_reversed.fasta] HDF2 protein [Saccharomyces cerevisiae] [nr-271106-contam.fasta] Subunit of the telomeric Ku complex (Yku70p-Yku80p), involved in telomere length maintenance, structure and telomere position effect; relocates to sites of double-strand cleavage to promote nonhomologous end joining during DSB repair; Yku80p [Saccharomyce [nr-271106-contam.fasta] unknown [Saccharomyces cerevisiae] [nr-271106-contam.fasta] Yeast Ku80 protein (High affinity DNA-binding factor subunit 2) [nr-271106-contam.fasta] YKU80 SGDID:S000004712, Chr XIII from 480189-478300, reverse complement, Verified ORF, "Subunit of the telomeric Ku complex (Yku70p-Yku80p), involved in telomere length maintenance, structure and telomere position effect; relocates to sites of double-strand cleavage to promote nonhomologous end joining during DSB repair" [yeast-bovrabprots.fasta] [chemostatdb.fasta] ATP-dependent DNA helicase II subunit 2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=YKU80 PE=1 SV=1 [UniProt_S_cerevisiae_20120516_05-16-2012_reversed.fasta] YKU80 SGDID:S000004712, Chr XIII from 480190-478301, Genome Release 64-1-1, reverse complement, Verified ORF, "Subunit of the telomeric Ku complex (Yku70p-Yku80p), involved in telomere length maintenance, structure and telomere position effect; relocates to sites of double-strand cleavage to promote nonhomologous end joining during DSB repair" [yeast-030211-contam.fasta] YKU80 SGDID:S000004712, Chr XIII from 480190-478301, Genome Release 64-2-1, reverse complement, Verified ORF, "Subunit of the telomeric Ku complex (Yku70p-Yku80p); involved in telomere length maintenance, structure and telomere position effect; required for localization of telomerase ribonucleoprotein via interaction with the TLC1 guide RNA; relocates to sites of double-strand cleavage to promote nonhomologous end joining during DSB repair" [20141208_orf_trans.fasta] YMR106C SGDID:S000004712, Chr XIII from 480190-478301, Genome Release 64-1-1, reverse complement, Verified ORF, "Subunit of the telomeric Ku complex (Yku70p-Yku80p), involved in telomere length maintenance, structure and telomere position effect; relocates to sites of double-strand cleavage to promote nonhomologous end joining during DSB repair" [2016-01-SGD_Yeast_Contam_Riffle_20140507-Ska-Hec-110-tubulin.fasta]
Organism:	Saccharomyces cerevisiae
Length:	629 amino acids
Gene Ontology:
Cellular Component:	nuclear chromatin [TAS] nuclear telomeric heterochromatin [TAS]
Biological Process:	double-strand break repair via homologous recombination [IMP] telomere maintenance [IMP ] chromatin assembly or disassembly [IDA] chromatin silencing [IDA][IMP] double-strand break repair via nonhomologous end joining [IDA] donor selection [IDA][IGI][IMP ]
Molecular Function:	DNA binding [IDA] RNA binding [IDA] damaged DNA binding [TAS]

Sequence:

Sequence:
[PDR BLAST]
[ProtParam]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSSESTTFIV DVSPSMMKNN NVSKSMAYLE YTLLNKSKKS RKTDWISCYL ANCPVSENSQ  60
   61 EIPNVFQIQS FLAPVTTTAT IGFIKRLKQY CDQHSHDSSN EGLQSMIQCL LVVSLDIKQQ 120
  121 FQARKILKQI VVFTDNLDDL DITDEEIDLL TEELSTRIIL IDCGKDTQEE RKKSNWLKLV 180
  181 EAIPNSRIYN MNELLVEITS PATSVVKPVR VFSGELRLGA DILSTQTSNP SGSMQDENCL 240
  241 CIKVEAFPAT KAVSGLNRKT AVEVEDSQKK ERYVGVKSII EYEIHNEGNK KNVSEDDQSG 300
  301 SSYIPVTISK DSVTKAYRYG ADYVVLPSVL VDQTVYESFP GLDLRGFLNR EALPRYFLTS 360
  361 ESSFITADTR LGCQSDLMAF SALVDVMLEN RKIAVARYVS KKDSEVNMCA LCPVLIEHSN 420
  421 INSEKKFVKS LTLCRLPFAE DERVTDFPKL LDRTTTSGVP LKKETDGHQI DELMEQFVDS 480
  481 MDTDELPEIP LGNYYQPIGE VTTDTTLPLP SLNKDQEENK KDPLRIPTVF VYRQQQVLLE 540
  541 WIHQLMINDS REFEIPELPD SLKNKISPYT HKKFDSTKLV EVLGIKKVDK LKLDSELKTE 600
  601 LEREKIPDLE TLLKRGEQHS RGSPNNSNN

Protein Complex Data

	PUBLICATION	TOPOLOGY	COCOMPLEXED PROTEINS
View Details	Riffle et al. (2010) (Unpublished Data)		YKU70 YKU80
View Details	(MIPS) Mewes HW, et al. (2004)		YKU70 YKU80
View Details	Krogan NJ, et al. (2006)		FMP48 MUC1 YKU70 YKU80
View Details	Gavin AC, et al. (2006)		YKU70 YKU80
View Details	Gavin AC, et al. (2002)		YKU70 YKU80
View Details	Ho Y, et al. (2002)		ACC1 ADR1 APT1 ARO1 ATP3 AVO1 CCT3 CCT5 CLU1 COP1 CPA2 DEF1 DHH1 DPB2 DSS1 ECM10 FOL2 FUN12 GAL7 GPH1 IDH1 ILV2 LSC1 LST8 LYS12 MET16 MKK2 MTC5 NOG2 NPA3 OYE2 PDX1 PHO85 PHO86 POR1 PRE1 PST2 PUF3 PUP3 RPN12 RRP3 SIP1 SIS1 SLC1 SLX1 SOD2 SRP54 STI1 TEM1 TFC7 TMA29 TPS1 TSA2 VMA8 YBT1 YER077C YGR266W YHR033W YKR051W YKU80 YLR271W YML020W YPR003C
View Details	Qiu et al. (2008)		PCC1 TBF1 YKU80

Mass Spectrometry Data

The following runs contain data for this protein:

	BAIT	COMMENTS	PUBLICATION
View Run	RPA135	his-HA tag on RPA135	Schneider, DA, et al. (2006)

Yeast Two-Hybrid Data

The following interactions contain this protein:

NOT SHOWING SINGLE HITS. [ Show Single Hits ]

[View our yeast two-hybrid interpretation guidelines.]

	BAIT	PREY	HITS	PUBLICATION
View Screen	RGD2	YKU80	2	Unpublished Fields Lab Data

Microscopy / Localization Data

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	PROTEIN(S)	PUBLICATION
View Data	YKU80	Huh WK, et al. (2003)

Protein Structure Data

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[View Top Sequence Alignments] [Show Ginzu Version Information]

Domains predicted:

#		Region(s)	Method	Confidence	Match Description
1	View Details	[1..244] [269..288] [481..513]	PSI-BLAST	158.0	DNA binding C-terminal domain of ku70; Ku70 subunit
2	View Details	[245..268] [289..445]	PSI-BLAST	158.0	DNA binding C-terminal domain of ku70; Ku70 subunit
3	View Details	[446..480] [514..629]	PSI-BLAST	158.0	DNA binding C-terminal domain of ku70; Ku70 subunit

Functions predicted (by domain):

Gene Ontology predictions

Term	Confidence	Notes
double-stranded telomeric DNA binding	8.64621483095491	bayes_pls_golite062009
DNA-dependent protein kinase activity	7.33495559751688	bayes_pls_golite062009
telomeric DNA binding	5.16364366157397	bayes_pls_golite062009
transcription regulator activity	3.05720838352689	bayes_pls_golite062009
binding	2.75824485094584	bayes_pls_golite062009
nucleic acid binding	2.08531850924748	bayes_pls_golite062009
promoter binding	1.97164983798318	bayes_pls_golite062009
DNA binding	1.91667917801679	bayes_pls_golite062009
transcription repressor activity	1.69798374416156	bayes_pls_golite062009
transcription activator activity	1.54159704189366	bayes_pls_golite062009
protein binding	1.53311876872122	bayes_pls_golite062009
transcription factor activity	1.37299910766941	bayes_pls_golite062009
DNA-dependent ATPase activity	0.985753648509262	bayes_pls_golite062009
single-stranded DNA binding	0.814975395718076	bayes_pls_golite062009
DNA helicase activity	0.720743494912414	bayes_pls_golite062009
transcription corepressor activity	0.702777559747981	bayes_pls_golite062009
ATP-dependent DNA helicase activity	0.506640285146188	bayes_pls_golite062009
protein dimerization activity	0.45109468643752	bayes_pls_golite062009
structure-specific DNA binding	0.450760554291027	bayes_pls_golite062009
structural molecule activity	0.375125487765613	bayes_pls_golite062009
transporter activity	0.371057816653329	bayes_pls_golite062009
protein complex binding	0.31789779419928	bayes_pls_golite062009
transcription factor binding	0.184852480703492	bayes_pls_golite062009
protein C-terminus binding	0.15516806759612	bayes_pls_golite062009

No functions predicted.

Reference: Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

Philius Transmembrane Prediction:

Protein predicted to be:	GLOBULAR (No transmembrane regions or signal peptide)
Confidence of classification:	0.99

Source: Reynolds et al. (2008)

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2