Protein Overview: RAD50

General Information:
Name(s) found:	RAD50 / YNL250W [SGD]
Description(s) found: SHOW ONLY BEST	pir\|\|BWBYDL RAD50 protein - yeast (Saccharomyces cerevisiae) [NCBI NR] gi\|6324079\|ref\|NP_014149.1\| Subunit of MRX complex, with Mre11p and Xrs2p, involved in processing double-strand DNA breaks in vegetative cells, initiation of meiotic DSBs, telomere maintenance, and nonhomologous end joining; Rad50p [Saccharomyces cerevisi [NCBI NR] gi\|4273\|emb\|CAA32919.1\| unnamed protein product [Saccharomyces cerevisiae] [NCBI NR] gi\|131782\|sp\|P12753.1\|RAD50_YEAST RecName: Full=DNA repair protein RAD50; AltName: Full=153 kDa protein [NCBI NR] gi\|1302293\|emb\|CAA96157.1\| RAD50 [Saccharomyces cerevisiae] [NCBI NR] gi\|1255968\|emb\|CAA65494.1\| RAD50 [Saccharomyces cerevisiae] [NCBI NR] DNA repair protein RAD50 OS=Saccharomyces cerevisiae GN=RAD50 PE=1 SV=1 [Swiss-Prot] (P12753) DNA repair protein RAD50 (153 kDa protein) [Swiss-Prot] RAD50 DNA repair protein [mips] Subunit of MRX complex, with Mre11p and Xrs2p, involved in processing double-strand DNA breaks in vegetative cells, initiation of meiotic DSBs, telomere maintenance, and nonhomologous end joining [SGD] Chr XIV from 175409-179347 [yeastorf3.fasta] RAD50, Chr XIV from 175409-179347 [yeast_orfs2] RAD50 SGDID:S0005194, Chr XIV from 175409-179347, Verified ORF [yeastflysequest.fasta] Rad50p [Saccharomyces cerevisiae]gi\|1255968\|emb\|CAA65494.1\| RAD50 [Saccharomyces cerevisiae]gi\|1302293\|emb\|CAA96157.1\| RAD50 [Saccharomyces cerevisiae]gi\|4273\|emb\|CAA32919.1\| unnamed protein product [Saccharomyces cerevisiae]gi\|73260\|pir\|\|BWBYDL RAD50 [nrdb_11152004_Chlamydomonas] RAD50 SGDID:S000005194, Chr XIV from 175411-179349, Verified ORF, "Subunit of MRX complex, with Mre11p and Xrs2p, involved in processing double-strand DNA breaks in vegetative cells, initiation of meiotic DSBs, telomere maintenance, and nonhomologous end [SGD_S-cerevisiae_na_12-16-2005_con_reversed.fasta] RAD50 [Saccharomyces cerevisiae] [nr-271106-contam.fasta] DNA repair protein RAD50 (153 kDa protein) [nr-271106-contam.fasta] Subunit of MRX complex, with Mre11p and Xrs2p, involved in processing double-strand DNA breaks in vegetative cells, initiation of meiotic DSBs, telomere maintenance, and nonhomologous end joining; Rad50p [Saccharomyces cerevisiae] [nr-271106-contam.fasta] unnamed protein product [Saccharomyces cerevisiae] [nr-271106-contam.fasta] RAD50 SGDID:S000005194, Chr XIV from 175411-179349, Verified ORF, "Subunit of MRX complex, with Mre11p and Xrs2p, involved in processing double-strand DNA breaks in vegetative cells, initiation of meiotic DSBs, telomere maintenance, and nonhomologous end joining" [yeast-bovrabprots.fasta] [chemostatdb.fasta] DNA repair protein RAD50 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RAD50 PE=1 SV=1 [UniProt_S_cerevisiae_20120516_05-16-2012_reversed.fasta] RAD50 SGDID:S000005194, Chr XIV from 175410-179348, Genome Release 64-1-1, Verified ORF, "Subunit of MRX complex, with Mre11p and Xrs2p, involved in processing double-strand DNA breaks in vegetative cells, initiation of meiotic DSBs, telomere maintenance, and nonhomologous end joining" [yeast-030211-contam.fasta] RAD50 SGDID:S000005194, Chr XIV from 175410-179348, Genome Release 64-2-1, Verified ORF, "Subunit of MRX complex with Mre11p and Xrs2p; complex is involved in processing double-strand DNA breaks in vegetative cells, initiation of meiotic DSBs, telomere maintenance, and nonhomologous end joining; forms nuclear foci upon DNA replication stress" [20141208_orf_trans.fasta] YNL250W SGDID:S000005194, Chr XIV from 175410-179348, Genome Release 64-1-1, Verified ORF, "Subunit of MRX complex, with Mre11p and Xrs2p, involved in processing double-strand DNA breaks in vegetative cells, initiation of meiotic DSBs, telomere maintenance, and nonhomologous end joining" [2016-01-SGD_Yeast_Contam_Riffle_20140507-Ska-Hec-110-tubulin.fasta]
Organism:	Saccharomyces cerevisiae
Length:	1312 amino acids
Gene Ontology:
Cellular Component:	nucleus [IDA] mitochondrion [IDA ] Mre11 complex [IPI]
Biological Process:	meiotic DNA double-strand break processing [TAS] double-strand break repair via break-induced replication [TAS] telomere maintenance [IMP ] telomere maintenance via recombination [IMP] double-strand break repair via nonhomologous end joining [IMP] meiosis [IMP] meiotic DNA double-strand break formation [TAS]
Molecular Function:	ATPase activity [IDA][ISS] adenylate kinase activity [IDA][IMP] protein binding [IPI] telomeric DNA binding [IDA] double-stranded DNA binding [IDA][IPI]

Sequence:

Sequence:
[PDR BLAST]
[ProtParam]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSAIYKLSIQ GIRSFDSNDR ETIEFGKPLT LIVGMNGSGK TTIIECLKYA TTGDLPPNSK  60
   61 GGVFIHDPKI TGEKDIRAQV KLAFTSANGL NMIVTRNIQL LMKKTTTTFK TLEGQLVAIN 120
  121 NSGDRSTLST RSLELDAQVP LYLGVPKAIL EYVIFCHQED SLWPLSEPSN LKKKFDEIFQ 180
  181 AMKFTKALDN LKSIKKDMSV DIKLLKQSVE HLKLDKDRSK AMKLNIHQLQ TKIDQYNEEV 240
  241 SEIESQLNEI TEKSDKLFKS NQDFQKILSK VENLKNTKLS ISDQVKRLSN SIDILDLSKP 300
  301 DLQNLLANFS KVLMDKNNQL RDLETDISSL KDRQSSLQSL SNSLIRRQGE LEAGKETYEK 360
  361 NRNHLSSLKE AFQHKFQGLS NIENSDMAQV NHEMSQFKAF ISQDLTDTID QFAKDIQLKE 420
  421 TNLSDLIKSI TVDSQNLEYN KKDRSKLIHD SEELAEKLKS FKSLSTQDSL NHELENLKTY 480
  481 KEKLQSWESE NIIPKLNQKI EEKNNEMIIL ENQIEKFQDR IMKTNQQADL YAKLGLIKKS 540
  541 INTKLDELQK ITEKLQNDSR IRQVFPLTQE FQRADLEMDF QKLFINMQKN IAINNKKMHE 600
  601 LDRRYTNALY NLNTIEKDLQ DNQKSKEKVI QLLSENLPED CTIDEYNDVL EETELSYKTA 660
  661 LENLKMHQTT LEFNRKALEI AERDSCCYLC SRKFENESFK SKLLQELKTK TDANFEKTLK 720
  721 DTVQNEKEYL HSLRLLEKHI ITLNSINEKI DNSQKCLEKA KEETKTSKSK LDELEVDSTK 780
  781 LKDEKELAES EIRPLIEKFT YLEKELKDLE NSSKTISEEL SIYNTSEDGI QTVDELRDQQ 840
  841 RKMNDSLREL RKTISDLQME KDEKVRENSR MINLIKEKEL TVSEIESSLT QKQNIDDSIR 900
  901 SKRENINDID SRVKELEARI ISLKNKKDEA QSVLDKVKNE RDIQVRNKQK TVADINRLID 960
  961 RFQTIYNEVV DFEAKGFDEL QTTIKELELN KAQMLELKEQ LDLKSNEVNE EKRKLADSNN1020
 1021 EEKNLKQNLE LIELKSQLQH IESEISRLDV QNAEAERDKY QEESLRLRTR FEKLSSENAG1080
 1081 KLGEMKQLQN QIDSLTHQLR TDYKDIEKNY HKEWVELQTR SFVTDDIDVY SKALDSAIMK1140
 1141 YHGLKMQDIN RIIDELWKRT YSGTDIDTIK IRSDEVSSTV KGKSYNYRVV MYKQDVELDM1200
 1201 RGRCSAGQKV LASIIIRLAL SETFGANCGV IALDEPTTNL DEENIESLAK SLHNIINMRR1260
 1261 HQKNFQLIVI THDEKFLGHM NAAAFTDHFF KVKRDDRQKS QIEWVDINRV TY

Protein Complex Data

	PUBLICATION	TOPOLOGY	COCOMPLEXED PROTEINS
View Details	(MIPS) Mewes HW, et al. (2004)		MRE11 RAD50 XRS2
View Details	Krogan NJ, et al. (2006)		DMC1 MRE11 RAD50 XRS2 YBL044W
View Details	Gavin AC, et al. (2002)		ENP1 HRR25 PAA1 PFK1 PTC3 RAD50 TSR1 VPS15
View Details	Ho Y, et al. (2002)		AHP1 CDC16 CDC39 DCS1 DCS2 DUN1 ERG20 GDB1 GPH1 MAM33 MKT1 MRE11 PST2 RAD50 REX2 RPT3 SEC27 SSK22 TFP1 TSA2 UBP15 UBR1 VMA8 VPS1 XRS2 YAK1 YLR241W YPL247C
View Details	Qiu et al. (2008)		RAD50 XRS2

Mass Spectrometry Data

The following runs contain data for this protein:

	BAIT	COMMENTS	PUBLICATION
View Run	RPA135	No Comments	Schneider, DA, et al. (2006)
View Run	ZDS1	Sample 2- cpn2 from june 2005	McCusker D, et al (2007)
View Run	ZDS1	Sample 3 - cpn + atp, from june 2005	McCusker D, et al (2007)
View Run	BOI1	Sample bob1 (2nd set) from october 2005	McCusker D, et al (2007)
View Run	MLP2	#29 Asynchronous Prep5-TiO2 Flowthrough	Keck JM, et al. (2011)
View Run	MLP2	#12 Mitotic Prep1-TiO2 Flowthrough	Keck JM, et al. (2011)
View Run	MLP2	#10 Mitotic Prep1-TiO2 Phosphopeptide enrichment	Keck JM, et al. (2011)
View Run	MLP2	#30 Asynchronous Prep6-TiO2 Phosphopeptide enrichment	Keck JM, et al. (2011)
View Run	MLP2	#11 Mitotic Prep1-TiO2 enriched, new search criteria	Keck JM, et al. (2011)

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	SKP1	RAD50	2	Unpublished Fields Lab Data

Microscopy / Localization Data

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	PROTEIN(S)	PUBLICATION
View Data	RAD50	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..56]	PSI-BLAST	2.39794	Rad50
2	View Details	[57..404]	PSI-BLAST	78.228787	Heavy meromyosin subfragment
3	View Details	[405..501]	deduced	N/A	No confident structure predictions are available.
4	View Details	[502..610]	PSI-BLAST	9.69897	Tropomyosin
5	View Details	[611..690]	PSI-BLAST	9.69897	Tropomyosin
6	View Details	[691..752]	PSI-BLAST	9.69897	Tropomyosin
7	View Details	[753..828]	PSI-BLAST	9.69897	Tropomyosin
8	View Details	[829..1135]	MSA	33.337996	View MSA. No confident structure predictions are available.
9	View Details	[1136..1229]	PSI-BLAST	38.440336	CRYSTAL STRUCTURE OF ATP-FREE RAD50 ABC-ATPASE
10	View Details	[1230..1312]	PSI-BLAST	38.440336	CRYSTAL STRUCTURE OF ATP-FREE RAD50 ABC-ATPASE

Functions predicted (by domain):

Gene Ontology predictions

No functions predicted.

Term	Confidence	Notes
transcription regulator activity	3.33295639088462	bayes_pls_golite062009
DNA binding	3.24326474452285	bayes_pls_golite062009
nucleic acid binding	3.08466758182729	bayes_pls_golite062009
binding	2.82931587763241	bayes_pls_golite062009
transcription factor activity	2.60119592373341	bayes_pls_golite062009
chromatin binding	1.68308196781423	bayes_pls_golite062009
sequence-specific DNA binding	1.49672337781081	bayes_pls_golite062009
RNA polymerase II transcription factor activity	1.27509072978642	bayes_pls_golite062009
telomeric DNA binding	1.18912537020579	bayes_pls_golite062009
transcription repressor activity	0.92388271789346	bayes_pls_golite062009
transcription activator activity	0.76577083878065	bayes_pls_golite062009
protein binding	0.730593483550931	bayes_pls_golite062009
structure-specific DNA binding	0.576650348476301	bayes_pls_golite062009
transcription factor binding	0.42980456622574	bayes_pls_golite062009
hydrolase activity	0.168066467681021	bayes_pls_golite062009
specific RNA polymerase II transcription factor activity	0.10360223465653	bayes_pls_golite062009
histone binding	0.0391625783266718	bayes_pls_golite062009
double-stranded DNA binding	0.0277518020584662	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