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Protein Overview: RAD2

General Information:
Name(s) found: RAD2 / YGR258C [SGD]
Description(s) found:
Found 27 descriptions.
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  • Single-stranded DNA endonuclease, cleaves single-stranded DNA during nucleotide excision repair to excise damaged DNA; subunit of Nucleotide Excision Repair Factor 3 (NEF3); homolog of human XPG protein [SGD]
    • Organism: Saccharomyces cerevisiae
    Length: 1031 amino acids

    Gene Ontology:
    Cellular Component: nucleotide-excision repair factor 3 complex [IDALink to PubMed article]
    Biological Process: nucleotide-excision repair, DNA incision, 3'-to lesion [TASLink to PubMed article]
    nucleotide-excision repair [IDALink to PubMed article]
    Molecular Function: single-stranded DNA specific endodeoxyribonuclease activity [TASLink to PubMed article]


    Sequence:
    Sequence:
    [PDR BLAST]
    [ProtParam] 
          1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MGVHSFWDIA GPTARPVRLE SLEDKRMAVD ASIWIYQFLK AVRDQEGNAV KNSHITGFFR  60
   61 RICKLLYFGI RPVFVFDGGV PVLKRETIRQ RKERRQGKRE SAKSTARKLL ALQLQNGSND 120
  121 NVKNSTPSSG SSVQIFKPQD EWDLPDIPGF KYDKEDARVN SNKTFEKLMN SINGDGLEDI 180
  181 DLDTINPASA EFEELPKATQ YLILSSLRLK SRLRMGYSKE QLETIFPNSM DFSRFQIDMV 240
  241 KRRNFFTQKL INTTGFQDGG ASKLNEEVIN RISGQKSKEY KLTKTNNGWI LGLGANDGSD 300
  301 AQKAIVIDDK DAGALVKQLD SNAEDGDVLR WDDLEDNSLK IVRHESSNAT TAPQKRSNRS 360
  361 EDEGCDSDEC EWEEVELKPK NVKFVEDFSL KAARLPYMGQ SLNNAGSKSF LDKRHDQASP 420
  421 SKTTPTMRIS RISVEDDDED YLKQIEEIEM MEAVQLSKME KKPEADDKSK IAKPVTSKGT 480
  481 EARPPIVQYG LLGAQPDSKQ PYHVTNLNSK SESVIKRTSK TVLSEFRPPS QQEDKGAILT 540
  541 EGEQNLNFIS HKIPQFDFNN ENSLLFQKNT ESNVSQEATK EKSPIPEMPS WFSSTASQQL 600
  601 YNPYNTTNFV EDKNVRNEQE SGAETTNKGS SYELLTGLNA TEILERESEK ESSNDENKDD 660
  661 DLEVLSEELF EDVPTKSQIS KEAEDNDSRK VESINKEHRK PLIFDYDFSE DEEDNIVENM 720
  721 IKEQEEFDTF KNTTLSTSAE RNVAENAFVE DELFEQQMKD KRDSDEVTMD MIKEVQELLS 780
  781 RFGIPYITAP MEAEAQCAEL LQLNLVDGII TDDSDVFLFG GTKIYKNMFH EKNYVEFYDA 840
  841 ESILKLLGLD RKNMIELAQL LGSDYTNGLK GMGPVSSIEV IAEFGNLKNF KDWYNNGQFD 900
  901 KRKQETENKF EKDLRKKLVN NEIILDDDFP SVMVYDAYMR PEVDHDTTPF VWGVPDLDML 960
  961 RSFMKTQLGW PHEKSDEILI PLIRDVNKRK KKGKQKRINE FFPREYISGD KKLNTSKRIS1020
 1021 TATGKLKKRK M

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details (MIPS) Mewes HW, et al. (2004) CCL1 KIN28 RAD2 RAD3 SSL1 SSL2 TFB1 TFB2 TFB3
    View Details Ho Y, et al. (2002) PEX15 RAD2
    View Details Qiu et al. (2008) CCL1 RAD1 RAD16 RAD2 RAD3 RAD7 SSL1 SSL2 TFB3

    Mass Spectrometry Data

    The following runs contain data for this protein:

      BAIT COMMENTS PUBLICATION
    View Run ZDS1 Sample 2- cpn2 from june 2005 McCusker D, et al (2007)
    View Run BOI1 Sample boi1 with gst from october 2005 McCusker D, et al (2007)
    View Run MLP2 #24 Asynchronous Prep3-TiO2 Phosphopeptide enrichment Keck JM, et al. (2011)
    View Run MLP2 #32 Asynchronous Prep-No Phosphopeptide enrichment Keck JM, et al. (2011)
    View Run MLP2 #12 Mitotic Prep1-TiO2 Flowthrough Keck JM, et al. (2011)
    View Run MLP2 #30 Asynchronous Prep6-TiO2 Phosphopeptide enrichment 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.]

    No yeast two-hybrid interactions found for this protein.

    Microscopy / Localization Data

    New Feature: Upload Your Own Microscopy Data

      PROTEIN(S) PUBLICATION
    View Data RAD2 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..195] ORFEUS 12.55 5' to 3' exonuclease domain of DNA polymerase Taq; Exonuclease domain of prokaryotic DNA polymerase; DNA polymerase I (Klenow fragment)
    2 View Details [196..647] MSA 32.249997 View MSA. No confident structure predictions are available.
    3 View Details [648..1031] PSI-BLAST 166.9897 Flap endonuclease-1 (Fen-1 nuclease)
    4 View Details [671..1031] PSI-BLAST 72.522879 Crystal structure of the human FEN1-PCNA complex

    Functions predicted (by domain):

    # Gene Ontology predictions
    1
    Term Confidence Notes
  • single-stranded DNA specific endodeoxyribonuclease activity
    		•  8.219187336366 bayes_pls_golite062009
  • endodeoxyribonuclease activity
    		•  7.26787266873051 bayes_pls_golite062009
  • deoxyribonuclease activity
    		•  6.75316483671775 bayes_pls_golite062009
  • endonuclease activity
    		•  6.39053146471031 bayes_pls_golite062009
  • exonuclease activity
    		•  3.46607201774246 bayes_pls_golite062009
  • flap endonuclease activity
    		•  3.35117165021395 bayes_pls_golite062009
  • DNA binding
    		•  2.74395891269151 bayes_pls_golite062009
  • hydrolase activity
    		•  2.60874360745066 bayes_pls_golite062009
  • binding
    		•  2.58539672241253 bayes_pls_golite062009
  • nucleic acid binding
    		•  2.54722210455433 bayes_pls_golite062009
  • 5'-3' exonuclease activity
    		•  2.50129811584994 bayes_pls_golite062009
  • nuclease activity
    		•  2.49612885073648 bayes_pls_golite062009
  • exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters
    		•  2.20867470281829 bayes_pls_golite062009
  • hydrolase activity, acting on ester bonds
    		•  2.11221521670814 bayes_pls_golite062009
  • exodeoxyribonuclease activity, producing 5'-phosphomonoesters
    		•  2.01491211227289 bayes_pls_golite062009
  • exodeoxyribonuclease activity
    		•  2.00804590500192 bayes_pls_golite062009
  • damaged DNA binding
    		•  1.82833131243547 bayes_pls_golite062009
  • 5'-3' exodeoxyribonuclease activity
    		•  1.59902329953921 bayes_pls_golite062009
  • structure-specific DNA binding
    		•  1.57088273902548 bayes_pls_golite062009
  • double-stranded DNA specific exodeoxyribonuclease activity
    		•  1.46817649825808 bayes_pls_golite062009
  • catalytic activity
    		•  1.27951740231695 bayes_pls_golite062009
  • 5'-flap endonuclease activity
    		•  1.13738790511505 bayes_pls_golite062009
  • single-stranded DNA specific exodeoxyribonuclease activity
    		•  1.06918533266108 bayes_pls_golite062009
  • double-stranded DNA binding
    		•  0.550147498650064 bayes_pls_golite062009
  • single-stranded DNA specific 5'-3' exodeoxyribonuclease activity
    		•  0.496731274592508 bayes_pls_golite062009
  • endodeoxyribonuclease activity, producing 5'-phosphomonoesters
    		•  0.330551387282259 bayes_pls_golite062009
  • protein binding
    		•  0.235717056815183 bayes_pls_golite062009
  • 3'-5' exonuclease activity
    		•  0.175191448555725 bayes_pls_golite062009
  • endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters
    		•  0.0756835782024594 bayes_pls_golite062009
  • DNA-directed DNA polymerase activity
    		•  0.00167240601151697 bayes_pls_golite062009
    2 No functions predicted.
    3 No functions predicted.
    4
    Term Confidence Notes
  • single-stranded DNA specific endodeoxyribonuclease activity
    		•  8.51020676030278 bayes_pls_golite062009
  • endodeoxyribonuclease activity
    		•  7.84678654948641 bayes_pls_golite062009
  • deoxyribonuclease activity
    		•  7.26876236760767 bayes_pls_golite062009
  • endonuclease activity
    		•  6.8680936339396 bayes_pls_golite062009
  • flap endonuclease activity
    		•  4.10438637013244 bayes_pls_golite062009
  • exonuclease activity
    		•  3.99717729574528 bayes_pls_golite062009
  • 5'-3' exonuclease activity
    		•  3.19536858640519 bayes_pls_golite062009
  • nuclease activity
    		•  2.9643999717473 bayes_pls_golite062009
  • DNA binding
    		•  2.84879111682833 bayes_pls_golite062009
  • hydrolase activity
    		•  2.80884894948531 bayes_pls_golite062009
  • exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters
    		•  2.66071760609476 bayes_pls_golite062009
  • nucleic acid binding
    		•  2.62833003756567 bayes_pls_golite062009
  • binding
    		•  2.59149897255998 bayes_pls_golite062009
  • exodeoxyribonuclease activity, producing 5'-phosphomonoesters
    		•  2.50398903419616 bayes_pls_golite062009
  • exodeoxyribonuclease activity
    		•  2.49591627688404 bayes_pls_golite062009
  • hydrolase activity, acting on ester bonds
    		•  2.45364009363271 bayes_pls_golite062009
  • 5'-3' exodeoxyribonuclease activity
    		•  2.26658239783943 bayes_pls_golite062009
  • damaged DNA binding
    		•  2.10834170214137 bayes_pls_golite062009
  • double-stranded DNA specific exodeoxyribonuclease activity
    		•  2.09057967200253 bayes_pls_golite062009
  • 5'-flap endonuclease activity
    		•  1.81850767854435 bayes_pls_golite062009
  • structure-specific DNA binding
    		•  1.70042864382698 bayes_pls_golite062009
  • single-stranded DNA specific exodeoxyribonuclease activity
    		•  1.61167902830399 bayes_pls_golite062009
  • catalytic activity
    		•  1.37534898662234 bayes_pls_golite062009
  • single-stranded DNA specific 5'-3' exodeoxyribonuclease activity
    		•  1.15948049342759 bayes_pls_golite062009
  • endodeoxyribonuclease activity, producing 5'-phosphomonoesters
    		•  0.901965019685213 bayes_pls_golite062009
  • double-stranded DNA binding
    		•  0.626785110524684 bayes_pls_golite062009
  • endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters
    		•  0.512509234493511 bayes_pls_golite062009
  • 3'-5' exonuclease activity
    		•  0.50487165366129 bayes_pls_golite062009
  • protein binding
    		•  0.236485289446406 bayes_pls_golite062009
  • single-stranded DNA specific 3'-5' exodeoxyribonuclease activity
    		•  0.14861832363159 bayes_pls_golite062009
  • DNA-directed DNA polymerase activity
    		•  0.0941467407417242 bayes_pls_golite062009
  • DNA polymerase activity
    		•  0.0691107435153178 bayes_pls_golite062009
  • 3'-5'-exodeoxyribonuclease activity
    		•  0.0205129272358 bayes_pls_golite062009


    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: 0.96

    Source: Reynolds et al. (2008)

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