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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: 4 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)DescriptionActionsGraphical viewLength
Metal bindingi30Magnesium 1By similarity1
Metal bindingi77Magnesium 1By similarity1
Metal bindingi792Magnesium 1By similarity1
Metal bindingi794Magnesium 1By similarity1
Metal bindingi813Magnesium 2By similarity1
Metal bindingi815Magnesium 2By similarity1
Metal bindingi864Magnesium 2By similarity1

GO - Molecular functioni

GO - Biological processi

  • nucleotide-excision repair, DNA incision, 3'-to lesion Source: SGD
  • 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.
ReactomeiR-SCE-5696395. Formation of Incision Complex in GG-NER.
R-SCE-5696400. Dual Incision in GG-NER.
R-SCE-6782135. Dual incision in TC-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 lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome VII

Organism-specific databases

EuPathDBiFungiDB:YGR258C.
SGDiS000003490. RAD2.

Subcellular locationi

GO - Cellular componenti

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

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001540351 – 1031DNA repair protein RAD2Add BLAST1031

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei118PhosphoserineCombined sources1
Modified residuei367PhosphoserineCombined sources1
Modified residuei583PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP07276.
PRIDEiP07276.

PTM databases

iPTMnetiP07276.

Interactioni

Binary interactionsi

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

Protein-protein interaction databases

BioGridi33510. 46 interactors.
DIPiDIP-5869N.
IntActiP07276. 1 interactor.
MINTiMINT-683829.

Structurei

Secondary structure

11031
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi6 – 10Combined sources5
Helixi11 – 13Combined sources3
Beta strandi15 – 18Combined sources4
Helixi19 – 22Combined sources4
Beta strandi26 – 30Combined sources5
Helixi34 – 41Combined sources8
Beta strandi45 – 49Combined sources5
Helixi53 – 67Combined sources15
Beta strandi71 – 76Combined sources6
Helixi82 – 96Combined sources15
Beta strandi667 – 669Combined sources3
Helixi769 – 781Combined sources13
Beta strandi786 – 788Combined sources3
Helixi793 – 802Combined sources10
Beta strandi807 – 810Combined sources4
Helixi815 – 818Combined sources4
Beta strandi823 – 827Combined sources5
Beta strandi830 – 839Combined sources10
Helixi840 – 847Combined sources8
Helixi851 – 861Combined sources11
Helixi874 – 884Combined sources11
Helixi887 – 899Combined sources13
Helixi901 – 904Combined sources4
Helixi909 – 920Combined sources12
Helixi932 – 939Combined sources8
Helixi957 – 968Combined sources12
Helixi972 – 982Combined sources11

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB 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.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 95N-domainAdd BLAST95
Regioni756 – 884I-domainAdd BLAST129

Sequence similaritiesi

Phylogenomic databases

GeneTreeiENSGT00640000091542.
HOGENOMiHOG000214817.
InParanoidiP07276.
KOiK10846.
OMAiFQATMRD.
OrthoDBiEOG092C2ISI.

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.
IPR006084. XPG/Rad2.
IPR001044. XPG/Rad2_eukaryotes.
IPR019974. XPG_CS.
IPR006085. XPG_DNA_repair_N.
[Graphical view]
PfamiPF00867. XPG_I. 1 hit.
PF00752. XPG_N. 1 hit.
[Graphical view]
PRINTSiPR00853. XPGRADSUPER.
PR00066. 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)DescriptionActionsGraphical viewLength
Sequence conflicti782F → L in AAT92876 (PubMed:17322287).Curated1

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
PDB 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.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi33510. 46 interactors.
DIPiDIP-5869N.
IntActiP07276. 1 interactor.
MINTiMINT-683829.

PTM databases

iPTMnetiP07276.

Proteomic databases

MaxQBiP07276.
PRIDEiP07276.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Organism-specific databases

EuPathDBiFungiDB:YGR258C.
SGDiS000003490. RAD2.

Phylogenomic databases

GeneTreeiENSGT00640000091542.
HOGENOMiHOG000214817.
InParanoidiP07276.
KOiK10846.
OMAiFQATMRD.
OrthoDBiEOG092C2ISI.

Enzyme and pathway databases

BioCyciYEAST:G3O-30928-MONOMER.
ReactomeiR-SCE-5696395. Formation of Incision Complex in GG-NER.
R-SCE-5696400. Dual Incision in GG-NER.
R-SCE-6782135. Dual incision in TC-NER.

Miscellaneous databases

PROiP07276.

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.
IPR006084. XPG/Rad2.
IPR001044. XPG/Rad2_eukaryotes.
IPR019974. XPG_CS.
IPR006085. XPG_DNA_repair_N.
[Graphical view]
PfamiPF00867. XPG_I. 1 hit.
PF00752. XPG_N. 1 hit.
[Graphical view]
PRINTSiPR00853. XPGRADSUPER.
PR00066. 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...

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: November 2, 2016
This is version 168 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

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 one 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.