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P07276 - RAD2_YEAST

UniProt

P07276 - RAD2_YEAST

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Protein

DNA repair protein RAD2

Gene

RAD2

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Single-stranded DNA endonuclease involved in excision repair of DNA damaged with UV light, bulky adducts, or cross-linking agents. Essential for the incision step of excision-repair.1 Publication

Cofactori

Mg2+By similarityNote: Binds 2 magnesium ions per subunit. They probably participate in the reaction catalyzed by the enzyme. May bind an additional third magnesium ion after substrate binding.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi30 – 301Magnesium 1By similarity
Metal bindingi77 – 771Magnesium 1By similarity
Metal bindingi792 – 7921Magnesium 1By similarity
Metal bindingi794 – 7941Magnesium 1By similarity
Metal bindingi813 – 8131Magnesium 2By similarity
Metal bindingi815 – 8151Magnesium 2By similarity
Metal bindingi864 – 8641Magnesium 2By similarity

GO - Molecular functioni

  1. metal ion binding Source: UniProtKB-KW
  2. single-stranded DNA binding Source: InterPro
  3. single-stranded DNA endodeoxyribonuclease activity Source: SGD

GO - Biological processi

  1. DNA catabolic process, endonucleolytic Source: GOC
  2. nucleotide-excision repair, DNA incision, 3'-to lesion Source: SGD
  3. transcription from RNA polymerase II promoter Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Endonuclease, Hydrolase, Nuclease

Keywords - Biological processi

DNA damage, DNA repair

Keywords - Ligandi

Magnesium, Metal-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-30928-MONOMER.
ReactomeiREACT_233196. Formation of incision complex in GG-NER.
REACT_235070. Dual incision reaction in TC-NER.
REACT_247354. Formation of transcription-coupled NER (TC-NER) repair complex.
REACT_250453. Dual incision reaction in GG-NER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA repair protein RAD2 (EC:3.1.-.-)
Gene namesi
Name:RAD2
Ordered Locus Names:YGR258C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces ›
ProteomesiUP000002311: Chromosome VII

Organism-specific databases

CYGDiYGR258c.
SGDiS000003490. RAD2.

Subcellular locationi

Nucleus

GO - Cellular componenti

  1. nucleotide-excision repair factor 3 complex Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 10311031DNA repair protein RAD2PRO_0000154035Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei118 – 1181Phosphoserine1 Publication
Modified residuei367 – 3671Phosphoserine1 Publication
Modified residuei583 – 5831Phosphoserine1 Publication

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP07276.
PaxDbiP07276.
PeptideAtlasiP07276.
PRIDEiP07276.

Expressioni

Gene expression databases

GenevestigatoriP07276.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
SEN1Q004163EBI-14757,EBI-16945

Protein-protein interaction databases

BioGridi33510. 45 interactions.
DIPiDIP-5869N.
IntActiP07276. 1 interaction.
MINTiMINT-683829.
STRINGi4932.YGR258C.

Structurei

Secondary structure

1
1031
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi6 – 105Combined sources
Helixi11 – 133Combined sources
Beta strandi15 – 184Combined sources
Helixi19 – 224Combined sources
Beta strandi26 – 305Combined sources
Helixi34 – 418Combined sources
Beta strandi45 – 495Combined sources
Helixi53 – 6715Combined sources
Beta strandi71 – 766Combined sources
Helixi82 – 9615Combined sources
Beta strandi667 – 6693Combined sources
Helixi769 – 78113Combined sources
Beta strandi786 – 7883Combined sources
Helixi793 – 80210Combined sources
Beta strandi807 – 8104Combined sources
Helixi815 – 8184Combined sources
Beta strandi823 – 8275Combined sources
Beta strandi830 – 83910Combined sources
Helixi840 – 8478Combined sources
Helixi851 – 86111Combined sources
Helixi874 – 88411Combined sources
Helixi887 – 89913Combined sources
Helixi901 – 9044Combined sources
Helixi909 – 92012Combined sources
Helixi932 – 9398Combined sources
Helixi957 – 96812Combined sources
Helixi972 – 98211Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2LOXNMR-B642-690[»]
4Q0RX-ray2.75A/B2-986[»]
4Q0WX-ray2.10A/B2-986[»]
4Q0ZX-ray2.40A/B/E/F2-986[»]
4Q10X-ray2.70A/B2-986[»]
ProteinModelPortaliP07276.
SMRiP07276. Positions 2-104, 762-983.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1 – 9595N-domainAdd
BLAST
Regioni756 – 884129I-domainAdd
BLAST

Sequence similaritiesi

Belongs to the XPG/RAD2 endonuclease family. XPG subfamily.Curated

Phylogenomic databases

eggNOGiCOG0258.
GeneTreeiENSGT00640000091542.
HOGENOMiHOG000214817.
InParanoidiP07276.
KOiK10846.
OMAiFQATMRD.
OrthoDBiEOG7QK0MK.

Family and domain databases

Gene3Di3.40.50.1010. 2 hits.
InterProiIPR020045. 5-3_exonuclease_C.
IPR008918. HhH2.
IPR029060. PIN_domain-like.
IPR006086. XPG-I_dom.
IPR001044. XPG/Rad2_eukaryotes.
IPR019974. XPG_CS.
IPR006085. XPG_DNA_repair_N.
[Graphical view]
PANTHERiPTHR11081:SF1. PTHR11081:SF1. 1 hit.
PfamiPF00867. XPG_I. 1 hit.
PF00752. XPG_N. 1 hit.
[Graphical view]
PRINTSiPR00066. XRODRMPGMNTG.
SMARTiSM00279. HhH2. 1 hit.
SM00484. XPGI. 1 hit.
SM00485. XPGN. 1 hit.
[Graphical view]
SUPFAMiSSF47807. SSF47807. 2 hits.
SSF88723. SSF88723. 2 hits.
TIGRFAMsiTIGR00600. rad2. 1 hit.
PROSITEiPS00841. XPG_1. 1 hit.
PS00842. XPG_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P07276-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MGVHSFWDIA GPTARPVRLE SLEDKRMAVD ASIWIYQFLK AVRDQEGNAV 
        60         70         80         90        100
KNSHITGFFR RICKLLYFGI RPVFVFDGGV PVLKRETIRQ RKERRQGKRE 
       110        120        130        140        150
SAKSTARKLL ALQLQNGSND NVKNSTPSSG SSVQIFKPQD EWDLPDIPGF 
       160        170        180        190        200
KYDKEDARVN SNKTFEKLMN SINGDGLEDI DLDTINPASA EFEELPKATQ 
       210        220        230        240        250
YLILSSLRLK SRLRMGYSKE QLETIFPNSM DFSRFQIDMV KRRNFFTQKL 
       260        270        280        290        300
INTTGFQDGG ASKLNEEVIN RISGQKSKEY KLTKTNNGWI LGLGANDGSD 
       310        320        330        340        350
AQKAIVIDDK DAGALVKQLD SNAEDGDVLR WDDLEDNSLK IVRHESSNAT 
       360        370        380        390        400
TAPQKRSNRS EDEGCDSDEC EWEEVELKPK NVKFVEDFSL KAARLPYMGQ 
       410        420        430        440        450
SLNNAGSKSF LDKRHDQASP SKTTPTMRIS RISVEDDDED YLKQIEEIEM 
       460        470        480        490        500
MEAVQLSKME KKPEADDKSK IAKPVTSKGT EARPPIVQYG LLGAQPDSKQ 
       510        520        530        540        550
PYHVTNLNSK SESVIKRTSK TVLSEFRPPS QQEDKGAILT EGEQNLNFIS 
       560        570        580        590        600
HKIPQFDFNN ENSLLFQKNT ESNVSQEATK EKSPIPEMPS WFSSTASQQL 
       610        620        630        640        650
YNPYNTTNFV EDKNVRNEQE SGAETTNKGS SYELLTGLNA TEILERESEK 
       660        670        680        690        700
ESSNDENKDD DLEVLSEELF EDVPTKSQIS KEAEDNDSRK VESINKEHRK 
       710        720        730        740        750
PLIFDYDFSE DEEDNIVENM IKEQEEFDTF KNTTLSTSAE RNVAENAFVE 
       760        770        780        790        800
DELFEQQMKD KRDSDEVTMD MIKEVQELLS RFGIPYITAP MEAEAQCAEL 
       810        820        830        840        850
LQLNLVDGII TDDSDVFLFG GTKIYKNMFH EKNYVEFYDA ESILKLLGLD 
       860        870        880        890        900
RKNMIELAQL LGSDYTNGLK GMGPVSSIEV IAEFGNLKNF KDWYNNGQFD 
       910        920        930        940        950
KRKQETENKF EKDLRKKLVN NEIILDDDFP SVMVYDAYMR PEVDHDTTPF 
       960        970        980        990       1000
VWGVPDLDML RSFMKTQLGW PHEKSDEILI PLIRDVNKRK KKGKQKRINE 
      1010       1020       1030 
FFPREYISGD KKLNTSKRIS TATGKLKKRK M
Length:1,031
Mass (Da):117,838
Last modified:November 1, 1991 - v2
Checksum:i682D4AECFBD7F0F3
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti782 – 7821F → L in AAT92876. (PubMed:17322287)Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M10275 Genomic DNA. Translation: AAA66928.1.
Y07777 Genomic DNA. Translation: CAA69080.1.
Z73043 Genomic DNA. Translation: CAA97287.1.
BK006941 Genomic DNA. Translation: DAA08349.1.
AY692857 Genomic DNA. Translation: AAT92876.1.
PIRiA29839.
RefSeqiNP_011774.1. NM_001181387.1.

Genome annotation databases

EnsemblFungiiYGR258C; YGR258C; YGR258C.
GeneIDi853174.
KEGGisce:YGR258C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M10275 Genomic DNA. Translation: AAA66928.1.
Y07777 Genomic DNA. Translation: CAA69080.1.
Z73043 Genomic DNA. Translation: CAA97287.1.
BK006941 Genomic DNA. Translation: DAA08349.1.
AY692857 Genomic DNA. Translation: AAT92876.1.
PIRiA29839.
RefSeqiNP_011774.1. NM_001181387.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2LOXNMR-B642-690[»]
4Q0RX-ray2.75A/B2-986[»]
4Q0WX-ray2.10A/B2-986[»]
4Q0ZX-ray2.40A/B/E/F2-986[»]
4Q10X-ray2.70A/B2-986[»]
ProteinModelPortaliP07276.
SMRiP07276. Positions 2-104, 762-983.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi33510. 45 interactions.
DIPiDIP-5869N.
IntActiP07276. 1 interaction.
MINTiMINT-683829.
STRINGi4932.YGR258C.

Proteomic databases

MaxQBiP07276.
PaxDbiP07276.
PeptideAtlasiP07276.
PRIDEiP07276.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYGR258C; YGR258C; YGR258C.
GeneIDi853174.
KEGGisce:YGR258C.

Organism-specific databases

CYGDiYGR258c.
SGDiS000003490. RAD2.

Phylogenomic databases

eggNOGiCOG0258.
GeneTreeiENSGT00640000091542.
HOGENOMiHOG000214817.
InParanoidiP07276.
KOiK10846.
OMAiFQATMRD.
OrthoDBiEOG7QK0MK.

Enzyme and pathway databases

BioCyciYEAST:G3O-30928-MONOMER.
ReactomeiREACT_233196. Formation of incision complex in GG-NER.
REACT_235070. Dual incision reaction in TC-NER.
REACT_247354. Formation of transcription-coupled NER (TC-NER) repair complex.
REACT_250453. Dual incision reaction in GG-NER.

Miscellaneous databases

NextBioi973302.
PROiP07276.

Gene expression databases

GenevestigatoriP07276.

Family and domain databases

Gene3Di3.40.50.1010. 2 hits.
InterProiIPR020045. 5-3_exonuclease_C.
IPR008918. HhH2.
IPR029060. PIN_domain-like.
IPR006086. XPG-I_dom.
IPR001044. XPG/Rad2_eukaryotes.
IPR019974. XPG_CS.
IPR006085. XPG_DNA_repair_N.
[Graphical view]
PANTHERiPTHR11081:SF1. PTHR11081:SF1. 1 hit.
PfamiPF00867. XPG_I. 1 hit.
PF00752. XPG_N. 1 hit.
[Graphical view]
PRINTSiPR00066. XRODRMPGMNTG.
SMARTiSM00279. HhH2. 1 hit.
SM00484. XPGI. 1 hit.
SM00485. XPGN. 1 hit.
[Graphical view]
SUPFAMiSSF47807. SSF47807. 2 hits.
SSF88723. SSF88723. 2 hits.
TIGRFAMsiTIGR00600. rad2. 1 hit.
PROSITEiPS00841. XPG_1. 1 hit.
PS00842. XPG_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The RAD2 gene of Saccharomyces cerevisiae: nucleotide sequence and transcript mapping."
    Nicolet C.M., Chenevert J.M., Friedberg E.C.
    Gene 36:225-234(1985) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "Nucleotide sequence, transcript mapping, and regulation of the RAD2 gene of Saccharomyces cerevisiae."
    Madura K., Prakash S.
    J. Bacteriol. 166:914-923(1986) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], SEQUENCE REVISION.
  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. "Analysis of an 11.6 kb region from the right arm of chromosome VII of Saccharomyces cerevisiae between the RAD2 and the MES1 genes reveals the presence of three new genes."
    Clemente M.L., Sartori G., Cardazzo B., Carignani G.
    Yeast 13:287-290(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-51.
    Strain: ATCC 96604 / S288c / FY1679.
  7. "Yeast excision repair gene RAD2 encodes a single-stranded DNA endonuclease."
    Habraken Y., Sung P., Prakash L., Prakash S.
    Nature 366:365-368(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  8. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  9. "A multidimensional chromatography technology for in-depth phosphoproteome analysis."
    Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H.
    Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-583, IDENTIFICATION BY MASS SPECTROMETRY [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: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-118 AND SER-367, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
+Additional computationally mapped references.

Entry informationi

Entry nameiRAD2_YEAST
AccessioniPrimary (citable) accession number: P07276
Secondary accession number(s): D6VV38, E9P8X9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 1, 1988
Last sequence update: November 1, 1991
Last modified: January 7, 2015
This is version 152 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 846 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

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

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.