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Protein

DNA repair protein RAD50

Gene

RAD50

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

Functioni

Involved in DNA double-strand break repair (DSBR). The rad50/mre11 complex possesses single-strand endonuclease activity and ATP-dependent double-strand-specific exonuclease activity. Rad50 provides ATP-dependent control of mre11 by unwinding and/or repositioning DNA ends into the mre11 active site.

Miscellaneous

Present with 830 molecules/cell in log phase SD medium.1 Publication

Cofactori

Zn2+By similarityNote: Binds 1 zinc ion per homodimer.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi687ZincPROSITE-ProRule annotation1
Metal bindingi690ZincPROSITE-ProRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi34 – 41ATPSequence analysis8

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionHydrolase
Biological processDNA damage, DNA repair, Meiosis
LigandATP-binding, Metal-binding, Nucleotide-binding, Zinc

Enzyme and pathway databases

BioCyciYEAST:G3O-33247-MONOMER
ReactomeiR-SCE-2559586 DNA Damage/Telomere Stress Induced Senescence
R-SCE-5693548 Sensing of DNA Double Strand Breaks
R-SCE-5693565 Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks

Names & Taxonomyi

Protein namesi
Recommended name:
DNA repair protein RAD50 (EC:3.6.-.-)
Alternative name(s):
153 kDa protein
Gene namesi
Name:RAD50
Ordered Locus Names:YNL250W
ORF Names:N0872
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XIV

Organism-specific databases

SGDiS000005194 RAD50

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001386481 – 1312DNA repair protein RAD50Add BLAST1312

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei469PhosphoserineCombined sources1
Modified residuei568PhosphothreonineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP12753
PaxDbiP12753
PRIDEiP12753

PTM databases

iPTMnetiP12753

Interactioni

Subunit structurei

Homodimer (By similarity). Forms a complex with MRE11.By similarity

Binary interactionsi

Protein-protein interaction databases

BioGridi35589, 330 interactors
ComplexPortaliCPX-1872 MRE11-RAD50-XRS2 meiotic recombination initiation complex
DIPiDIP-2419N
IntActiP12753, 40 interactors
MINTiP12753
STRINGi4932.YNL250W

Structurei

3D structure databases

ProteinModelPortaliP12753
SMRiP12753
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini640 – 741Zinc-hookPROSITE-ProRule annotationAdd BLAST102

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili185 – 347Sequence analysisAdd BLAST163
Coiled coili403 – 558Sequence analysisAdd BLAST156
Coiled coili640 – 678Sequence analysisAdd BLAST39
Coiled coili712 – 741Sequence analysisAdd BLAST30
Coiled coili787 – 1108Sequence analysisAdd BLAST322

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi1204 – 1241Ala/Asp-rich (DA-box)Add BLAST38

Domaini

The zinc-hook, which separates the large intramolecular coiled coil regions, contains 2 Cys residues that coordinate one molecule of zinc with the help of the 2 Cys residues of the zinc-hook of another RAD50 molecule, thereby forming a V-shaped homodimer.By similarity

Sequence similaritiesi

Belongs to the SMC family. RAD50 subfamily.Curated

Keywords - Domaini

Coiled coil

Phylogenomic databases

GeneTreeiENSGT00390000018781
HOGENOMiHOG000192269
InParanoidiP12753
KOiK10866
OMAiGNRSYNY
OrthoDBiEOG092C0FLY

Family and domain databases

InterProiView protein in InterPro
IPR027417 P-loop_NTPase
IPR038729 Rad50/SbcC_AAA
IPR004584 Rad50_eukaryotes
IPR013134 Zn_hook_RAD50
PfamiView protein in Pfam
PF13476 AAA_23, 1 hit
PF04423 Rad50_zn_hook, 1 hit
SUPFAMiSSF52540 SSF52540, 1 hit
TIGRFAMsiTIGR00606 rad50, 1 hit
PROSITEiView protein in PROSITE
PS51131 ZN_HOOK, 1 hit

Sequencei

Sequence statusi: Complete.

P12753-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSAIYKLSIQ GIRSFDSNDR ETIEFGKPLT LIVGMNGSGK TTIIECLKYA
60 70 80 90 100
TTGDLPPNSK GGVFIHDPKI TGEKDIRAQV KLAFTSANGL NMIVTRNIQL
110 120 130 140 150
LMKKTTTTFK TLEGQLVAIN NSGDRSTLST RSLELDAQVP LYLGVPKAIL
160 170 180 190 200
EYVIFCHQED SLWPLSEPSN LKKKFDEIFQ AMKFTKALDN LKSIKKDMSV
210 220 230 240 250
DIKLLKQSVE HLKLDKDRSK AMKLNIHQLQ TKIDQYNEEV SEIESQLNEI
260 270 280 290 300
TEKSDKLFKS NQDFQKILSK VENLKNTKLS ISDQVKRLSN SIDILDLSKP
310 320 330 340 350
DLQNLLANFS KVLMDKNNQL RDLETDISSL KDRQSSLQSL SNSLIRRQGE
360 370 380 390 400
LEAGKETYEK NRNHLSSLKE AFQHKFQGLS NIENSDMAQV NHEMSQFKAF
410 420 430 440 450
ISQDLTDTID QFAKDIQLKE TNLSDLIKSI TVDSQNLEYN KKDRSKLIHD
460 470 480 490 500
SEELAEKLKS FKSLSTQDSL NHELENLKTY KEKLQSWESE NIIPKLNQKI
510 520 530 540 550
EEKNNEMIIL ENQIEKFQDR IMKTNQQADL YAKLGLIKKS INTKLDELQK
560 570 580 590 600
ITEKLQNDSR IRQVFPLTQE FQRADLEMDF QKLFINMQKN IAINNKKMHE
610 620 630 640 650
LDRRYTNALY NLNTIEKDLQ DNQKSKEKVI QLLSENLPED CTIDEYNDVL
660 670 680 690 700
EETELSYKTA LENLKMHQTT LEFNRKALEI AERDSCCYLC SRKFENESFK
710 720 730 740 750
SKLLQELKTK TDANFEKTLK DTVQNEKEYL HSLRLLEKHI ITLNSINEKI
760 770 780 790 800
DNSQKCLEKA KEETKTSKSK LDELEVDSTK LKDEKELAES EIRPLIEKFT
810 820 830 840 850
YLEKELKDLE NSSKTISEEL SIYNTSEDGI QTVDELRDQQ RKMNDSLREL
860 870 880 890 900
RKTISDLQME KDEKVRENSR MINLIKEKEL TVSEIESSLT QKQNIDDSIR
910 920 930 940 950
SKRENINDID SRVKELEARI ISLKNKKDEA QSVLDKVKNE RDIQVRNKQK
960 970 980 990 1000
TVADINRLID RFQTIYNEVV DFEAKGFDEL QTTIKELELN KAQMLELKEQ
1010 1020 1030 1040 1050
LDLKSNEVNE EKRKLADSNN EEKNLKQNLE LIELKSQLQH IESEISRLDV
1060 1070 1080 1090 1100
QNAEAERDKY QEESLRLRTR FEKLSSENAG KLGEMKQLQN QIDSLTHQLR
1110 1120 1130 1140 1150
TDYKDIEKNY HKEWVELQTR SFVTDDIDVY SKALDSAIMK YHGLKMQDIN
1160 1170 1180 1190 1200
RIIDELWKRT YSGTDIDTIK IRSDEVSSTV KGKSYNYRVV MYKQDVELDM
1210 1220 1230 1240 1250
RGRCSAGQKV LASIIIRLAL SETFGANCGV IALDEPTTNL DEENIESLAK
1260 1270 1280 1290 1300
SLHNIINMRR HQKNFQLIVI THDEKFLGHM NAAAFTDHFF KVKRDDRQKS
1310
QIEWVDINRV TY
Length:1,312
Mass (Da):152,569
Last modified:October 1, 1989 - v1
Checksum:i58A0AA173AC5677E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X14814 Genomic DNA Translation: CAA32919.1
X96722 Genomic DNA Translation: CAA65494.1
Z71526 Genomic DNA Translation: CAA96157.1
BK006947 Genomic DNA Translation: DAA10309.1
PIRiS05808 BWBYDL
RefSeqiNP_014149.1, NM_001183088.1

Genome annotation databases

EnsemblFungiiYNL250W; YNL250W; YNL250W
GeneIDi855471
KEGGisce:YNL250W

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X14814 Genomic DNA Translation: CAA32919.1
X96722 Genomic DNA Translation: CAA65494.1
Z71526 Genomic DNA Translation: CAA96157.1
BK006947 Genomic DNA Translation: DAA10309.1
PIRiS05808 BWBYDL
RefSeqiNP_014149.1, NM_001183088.1

3D structure databases

ProteinModelPortaliP12753
SMRiP12753
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi35589, 330 interactors
ComplexPortaliCPX-1872 MRE11-RAD50-XRS2 meiotic recombination initiation complex
DIPiDIP-2419N
IntActiP12753, 40 interactors
MINTiP12753
STRINGi4932.YNL250W

PTM databases

iPTMnetiP12753

Proteomic databases

MaxQBiP12753
PaxDbiP12753
PRIDEiP12753

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYNL250W; YNL250W; YNL250W
GeneIDi855471
KEGGisce:YNL250W

Organism-specific databases

SGDiS000005194 RAD50

Phylogenomic databases

GeneTreeiENSGT00390000018781
HOGENOMiHOG000192269
InParanoidiP12753
KOiK10866
OMAiGNRSYNY
OrthoDBiEOG092C0FLY

Enzyme and pathway databases

BioCyciYEAST:G3O-33247-MONOMER
ReactomeiR-SCE-2559586 DNA Damage/Telomere Stress Induced Senescence
R-SCE-5693548 Sensing of DNA Double Strand Breaks
R-SCE-5693565 Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks

Miscellaneous databases

PROiPR:P12753

Family and domain databases

InterProiView protein in InterPro
IPR027417 P-loop_NTPase
IPR038729 Rad50/SbcC_AAA
IPR004584 Rad50_eukaryotes
IPR013134 Zn_hook_RAD50
PfamiView protein in Pfam
PF13476 AAA_23, 1 hit
PF04423 Rad50_zn_hook, 1 hit
SUPFAMiSSF52540 SSF52540, 1 hit
TIGRFAMsiTIGR00606 rad50, 1 hit
PROSITEiView protein in PROSITE
PS51131 ZN_HOOK, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiRAD50_YEAST
AccessioniPrimary (citable) accession number: P12753
Secondary accession number(s): D6W0U3
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1989
Last sequence update: October 1, 1989
Last modified: November 7, 2018
This is version 187 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

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