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Protein Overview: RAD50

General Information:
Name(s) found: RAD50 / YNL250W [SGD]
Description(s) found:
Found 25 descriptions.
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  • 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]
    • Organism: Saccharomyces cerevisiae
    Length: 1312 amino acids

    Gene Ontology:
    Cellular Component: nucleus [IDALink to PubMed article]
    mitochondrion [IDALink to PubMed articleLink to PubMed article]
    Mre11 complex [IPILink to PubMed article]
    Biological Process: meiotic DNA double-strand break processing [TASLink to PubMed article]
    double-strand break repair via break-induced replication [TASLink to PubMed article]
    telomere maintenance [IMPLink to PubMed articleLink to PubMed article]
    telomere maintenance via recombination [IMPLink to PubMed article]
    double-strand break repair via nonhomologous end joining [IMPLink to PubMed article]
    meiosis [IMPLink to PubMed article]
    meiotic DNA double-strand break formation [TASLink to PubMed article]
    Molecular Function: ATPase activity [IDALink to PubMed article][ISSLink to PubMed article]
    adenylate kinase activity [IDALink to PubMed article][IMPLink to PubMed article]
    protein binding [IPILink to PubMed article]
    telomeric DNA binding [IDALink to PubMed article]
    double-stranded DNA binding [IDALink to PubMed article][IPILink to PubMed article]


    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

    New Feature: Upload Your Own Microscopy Data

      PROTEIN(S) PUBLICATION
    View Data RAD50 Huh WK, et al. (2003)

    Protein Structure Data


    [What does the above image mean?]
    [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
    1 No functions predicted.
    2 No functions predicted.
    3 No functions predicted.
    4
    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
    5 No functions predicted.
    6 No functions predicted.
    7 No functions predicted.
    8 No functions predicted.
    9 No functions predicted.
    10 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)

    YRC Informatics Platform - Version 3.0
    Created and Maintained by: Michael Riffle