P07276 (RAD2_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
DNA repair protein RAD2
EC=3.1.-.-

Gene names

Name:	RAD2
Ordered Locus Names:	YGR258C

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Fungi › Dikarya › Ascomycota › saccharomyceta › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces › Saccharomyces cerevisiae

Protein attributes

Sequence length	1031 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	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. Ref.7
Cofactor	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.
Subcellular location	Nucleus.
Miscellaneous	Present with 846 molecules/cell in log phase SD medium.
Sequence similarities	Belongs to the XPG/RAD2 endonuclease family. XPG subfamily.

Ontologies

Keywords
Biological process	DNA damage DNA repair
Cellular component	Nucleus
Ligand	Magnesium Metal-binding
Molecular function	Endonuclease Hydrolase Nuclease
PTM	Phosphoprotein
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	DNA catabolic process, endonucleolytic Inferred from direct assay Ref.7. Source: GOC nucleotide-excision repair, DNA incision, 3'-to lesion Inferred from direct assay PubMed 7926735. Source: SGD transcription from RNA polymerase II promoter Inferred from genetic interaction PubMed 12110180. Source: SGD
Cellular_component	nucleotide-excision repair factor 3 complex Inferred from direct assay PubMed 8855246. Source: SGD
Molecular_function	metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW single-stranded DNA binding Inferred from electronic annotation. Source: InterPro single-stranded DNA endodeoxyribonuclease activity Inferred from direct assay Ref.7. Source: SGD
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
SEN1	Q00416	3	EBI-14757,EBI-16945

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 1031

1031

DNA repair protein RAD2

PRO_0000154035

Regions

Region

1 – 95

95

N-domain

Region

756 – 884

129

I-domain

Sites

Metal binding

30

1

Magnesium 1 By similarity

Metal binding

77

1

Magnesium 1 By similarity

Metal binding

792

1

Magnesium 1 By similarity

Metal binding

794

1

Magnesium 1 By similarity

Metal binding

813

1

Magnesium 2 By similarity

Metal binding

815

1

Magnesium 2 By similarity

Metal binding

864

1

Magnesium 2 By similarity

Amino acid modifications

Modified residue

118

1

Phosphoserine Ref.10

Modified residue

367

1

Phosphoserine Ref.10

Modified residue

583

1

Phosphoserine Ref.9

Experimental info

Sequence conflict

782

1

F → L in AAT92876. Ref.5

Secondary structure

1

.

.

.

1031

Helix Strand Turn

Details...

Beta strand

667 – 669

3

Sequences

	Sequence		Length	Mass (Da)
	P07276 [UniParc]. Last modified November 1, 1991. Version 2. Checksum: 682D4AECFBD7F0F3	FASTA	1,031	117,838
	10 20 30 40 50 60 MGVHSFWDIA GPTARPVRLE SLEDKRMAVD ASIWIYQFLK AVRDQEGNAV KNSHITGFFR 70 80 90 100 110 120 RICKLLYFGI RPVFVFDGGV PVLKRETIRQ RKERRQGKRE SAKSTARKLL ALQLQNGSND 130 140 150 160 170 180 NVKNSTPSSG SSVQIFKPQD EWDLPDIPGF KYDKEDARVN SNKTFEKLMN SINGDGLEDI 190 200 210 220 230 240 DLDTINPASA EFEELPKATQ YLILSSLRLK SRLRMGYSKE QLETIFPNSM DFSRFQIDMV 250 260 270 280 290 300 KRRNFFTQKL INTTGFQDGG ASKLNEEVIN RISGQKSKEY KLTKTNNGWI LGLGANDGSD 310 320 330 340 350 360 AQKAIVIDDK DAGALVKQLD SNAEDGDVLR WDDLEDNSLK IVRHESSNAT TAPQKRSNRS 370 380 390 400 410 420 EDEGCDSDEC EWEEVELKPK NVKFVEDFSL KAARLPYMGQ SLNNAGSKSF LDKRHDQASP 430 440 450 460 470 480 SKTTPTMRIS RISVEDDDED YLKQIEEIEM MEAVQLSKME KKPEADDKSK IAKPVTSKGT 490 500 510 520 530 540 EARPPIVQYG LLGAQPDSKQ PYHVTNLNSK SESVIKRTSK TVLSEFRPPS QQEDKGAILT 550 560 570 580 590 600 EGEQNLNFIS HKIPQFDFNN ENSLLFQKNT ESNVSQEATK EKSPIPEMPS WFSSTASQQL 610 620 630 640 650 660 YNPYNTTNFV EDKNVRNEQE SGAETTNKGS SYELLTGLNA TEILERESEK ESSNDENKDD 670 680 690 700 710 720 DLEVLSEELF EDVPTKSQIS KEAEDNDSRK VESINKEHRK PLIFDYDFSE DEEDNIVENM 730 740 750 760 770 780 IKEQEEFDTF KNTTLSTSAE RNVAENAFVE DELFEQQMKD KRDSDEVTMD MIKEVQELLS 790 800 810 820 830 840 RFGIPYITAP MEAEAQCAEL LQLNLVDGII TDDSDVFLFG GTKIYKNMFH EKNYVEFYDA 850 860 870 880 890 900 ESILKLLGLD RKNMIELAQL LGSDYTNGLK GMGPVSSIEV IAEFGNLKNF KDWYNNGQFD 910 920 930 940 950 960 KRKQETENKF EKDLRKKLVN NEIILDDDFP SVMVYDAYMR PEVDHDTTPF VWGVPDLDML 970 980 990 1000 1010 1020 RSFMKTQLGW PHEKSDEILI PLIRDVNKRK KKGKQKRINE FFPREYISGD KKLNTSKRIS 1030 TATGKLKKRK M

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[5]	"Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae." Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F., Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J., Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J. , Simpson A.J.G., Bulyk M.L., Harlow E., Marsischky G., Kolodner R.D., LaBaer J. Genome Res. 17:536-543(2007) [PubMed] [Europe PMC] [Abstract] 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]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed] [Europe PMC] [Abstract] 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.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

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.

PIR

A29839.

RefSeq

NP_011774.1. NM_001181387.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2LOX	NMR	-	B	642-690	[»]

ProteinModelPortal

P07276.

ModBase

Search...

MobiDB

Search...

Protein-protein interaction databases

BioGrid

33510. 45 interactions.

DIP

DIP-5869N.

IntAct

P07276. 1 interaction.

MINT

MINT-683829.

STRING

4932.YGR258C.

Proteomic databases

PaxDb

P07276.

PeptideAtlas

P07276.

PRIDE

P07276.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblFungi

YGR258C; YGR258C; YGR258C.

GeneID

853174.

KEGG

sce:YGR258C.

Organism-specific databases

CYGD

YGR258c.

SGD

S000003490. RAD2.

Phylogenomic databases

eggNOG

COG0258.

GeneTree

ENSGT00640000091542.

HOGENOM

HOG000214817.

KO

K10846.

OMA

FQATMRD.

OrthoDB

EOG7QK0MK.

Enzyme and pathway databases

BioCyc

YEAST:G3O-30928-MONOMER.

Gene expression databases

Genevestigator

P07276.

Family and domain databases

InterPro

IPR020045. 5-3_exonuclease_C.
IPR008918. HhH2.
IPR006086. XPG-I_dom.
IPR006084. XPG/Rad2.
IPR001044. XPG/Rad2_eukaryotes.
IPR019974. XPG_CS.
IPR006085. XPG_DNA_repair_N.
[Graphical view]

PANTHER

PTHR11081. PTHR11081. 1 hit.

Pfam

PF00867. XPG_I. 1 hit.
PF00752. XPG_N. 1 hit.
[Graphical view]

PRINTS

PR00853. XPGRADSUPER.
PR00066. XRODRMPGMNTG.

SMART

SM00279. HhH2. 1 hit.
SM00484. XPGI. 1 hit.
SM00485. XPGN. 1 hit.
[Graphical view]

SUPFAM

SSF47807. SSF47807. 2 hits.

TIGRFAMs

TIGR00600. rad2. 1 hit.

PROSITE

PS00841. XPG_1. 1 hit.
PS00842. XPG_2. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

NextBio

973302.

PRO

P07276.

Entry information

Entry name

RAD2_YEAST

Accession

Primary (citable) accession number: P07276
Secondary accession number(s): D6VV38, E9P8X9

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 1, 1988
Last sequence update:	November 1, 1991
Last modified:	April 16, 2014
This is version 146 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program