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Protein

DNA repair protein RAD50

Gene

rad50

Organism
Dictyostelium discoideum (Slime mold)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Protein inferred from homologyi

Functioni

Essential component of the MRN complex, a complex that possesses single-stranded DNA endonuclease and 3' to 5' exonuclease activities, and plays a central role in double-strand break (DSB) repair, chromosome morphogenesis, DNA repair and meiosis. In the complex, it mediates the ATP-binding and is probably required to bind DNA ends and hold them in close proximity (By similarity).By similarity

Cofactori

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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi732 – 7321ZincPROSITE-ProRule annotation
Metal bindingi735 – 7351ZincPROSITE-ProRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi34 – 418ATPSequence analysis

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Biological processi

Cell cycle, DNA damage, DNA repair, Meiosis

Keywords - Ligandi

ATP-binding, Metal-binding, Nucleotide-binding, Zinc

Enzyme and pathway databases

ReactomeiR-DDI-5693548. Sensing of DNA Double Strand Breaks.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA repair protein RAD50 (EC:3.6.-.-)
Alternative name(s):
DNA recombination/repair protein
Gene namesi
Name:rad50
ORF Names:DDB_G0292786
OrganismiDictyostelium discoideum (Slime mold)
Taxonomic identifieri44689 [NCBI]
Taxonomic lineageiEukaryotaAmoebozoaMycetozoaDictyosteliidaDictyostelium
Proteomesi
  • UP000002195 Componentsi: Chromosome 6, Unassembled WGS sequence

Organism-specific databases

dictyBaseiDDB_G0292786. rad50.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Chromosome, Nucleus, Telomere

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 13511351DNA repair protein RAD50PRO_0000327594Add
BLAST

Proteomic databases

PaxDbiQ54CS9.
PRIDEiQ54CS9.

Interactioni

Subunit structurei

Probable component of the MRN complex with mre11.By similarity

GO - Molecular functioni

Protein-protein interaction databases

STRINGi44689.DDB0232401.

Structurei

3D structure databases

ProteinModelPortaliQ54CS9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini688 – 78497Zinc-hookPROSITE-ProRule annotationAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili182 – 22443Sequence analysisAdd
BLAST
Coiled coili250 – 29041Sequence analysisAdd
BLAST
Coiled coili338 – 35821Sequence analysisAdd
BLAST
Coiled coili458 – 562105Sequence analysisAdd
BLAST
Coiled coili606 – 715110Sequence analysisAdd
BLAST
Coiled coili760 – 1045286Sequence analysisAdd
BLAST
Coiled coili1074 – 112855Sequence analysisAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi552 – 58231Asn-richAdd
BLAST
Compositional biasi583 – 5875Poly-Asp
Compositional biasi667 – 68418Asn-richAdd
BLAST

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. The two heads of the homodimer, which constitute the ATP-binding domain, interact with the mre11 homodimer (By similarity).By similarity

Sequence similaritiesi

Belongs to the SMC family. RAD50 subfamily.Curated
Contains 1 zinc-hook domain.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiKOG0962. Eukaryota.
COG0419. LUCA.
InParanoidiQ54CS9.
KOiK10866.
OMAiVLLCHQE.
PhylomeDBiQ54CS9.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR027417. P-loop_NTPase.
IPR004584. Rad50_eukaryotes.
IPR013134. Zn_hook_RAD50.
[Graphical view]
PANTHERiPTHR18867. PTHR18867. 2 hits.
SUPFAMiSSF52540. SSF52540. 4 hits.
PROSITEiPS51131. ZN_HOOK. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q54CS9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTSIEKLLVQ GIRSFDPREA SVIDFYSPLT LIVGQNGAGK TTIIECLKYT
60 70 80 90 100
CTGEMPPNCS SGQAFIHDTK IAGESEVKAQ IKLRFKNPIG KPIVASRSLS
110 120 130 140 150
LIQKSNKKQE YKQIDASLQS YTSDGQKVSK SFRCSDMDKE IPDLMGVAKP
160 170 180 190 200
ILKHVIFCHQ EDSNWPLSES AKLKLKFDEI FSAVKYTKAL KSLKDKRKEL
210 220 230 240 250
TTLIKELKLR LETISANIEH CNRIRKELIK AEEIYSNGNK SLEDIKIAII
260 270 280 290 300
EKQKTLSTIK IAESKLQELK NEVTVLNARK LEMERVKNQL FNSLTEVYQN
310 320 330 340 350
ETDEELVFMQ SEFNRECETM ATAEKELLEN SEVLLSQKEV INNLIKENSS
360 370 380 390 400
QKGRLQSLIS QQDSILSDRD KQMKELVTRY KMSDFIQIQL PYQKEIVIKF
410 420 430 440 450
INEITQKFDT LTSGISNYSK TNKQKLNAIQ MKINQKRVDS NQFTSSSNEK
460 470 480 490 500
MSTITLNSKK IQSLDQEIQQ HTNSIGEIDT LEKQIQFSQS ELSILKSDAN
510 520 530 540 550
LQEIQQSLDN LTTEKLEIEK EIQSLQSSLK LLNLQASSRT RLNIKRKEIQ
560 570 580 590 600
QNQQNINSQL NSQIINSINL ILPNEFNNDN NNDDDDDQFR FNIIQRIEPI
610 620 630 640 650
VPLINKKRLI FTNQLNELKQ QFQILQNKKN QIDAQLTSSI EPQLKKKQIE
660 670 680 690 700
LESYEKLIND SKLKQSNLFE NVNSNNNNNN NNNNGITVLL FENKINEMKL
710 720 730 740 750
SLEKLEKSFI VLESEDILYK EYIEKANQDK ECSLCKNEMN GNELTSFVHT
760 770 780 790 800
LETHCNDIPN QLKQLKIEIS NSKIQLEKFN KLLPIIVKRE ELIEKSIPEL
810 820 830 840 850
KESQKNLLEQ QLKSNEMVLE KQNQIESLES QSVLYQQVTL VFQYIDQTKQ
860 870 880 890 900
SIQSIESEIQ KEEKEIMKQS SDLRTIEEVD KDLEIQQEQL KTIEKEISNF
910 920 930 940 950
TNKQKNDQIG IFEKERQLIS IKNQLTTIKS ASGIIDHLRD TKKELQSNNQ
960 970 980 990 1000
QLQLEIENLQ QSIDQSNNDA KQLENEFQQL EIEFEKKIDA YSKEKNTFSV
1010 1020 1030 1040 1050
RLDSINSLQS KILDPSELCK QLNEIQEKNQ ELESNLSTLS QDYLIGQQHI
1060 1070 1080 1090 1100
STIQQNLSSK DITKRAISDN ISFRQHKNNV EQIIRQISRK NELIKEMMQS
1110 1120 1130 1140 1150
QLEIDSNKLE QEINSLKSKF DQITGQTAVL QSQINSNRQE LSKPTYKNID
1160 1170 1180 1190 1200
DVNKDLLIKL QTTETVGKDL DKYYKALDKS LMKYHTLKMD EINRSIKEIW
1210 1220 1230 1240 1250
QTTYKGSDID TIEIRSEESG TANKTINYRV VMIKGDVELD MRGRCSAGQK
1260 1270 1280 1290 1300
VLACLVIRLA LAENFCSNCG ILALDEPTSH LDRANIESFA NSLLNIIESR
1310 1320 1330 1340 1350
KSQKGFQLII ITHDEEFVQY LSRGNYCDYY WRVTKNANQH SHLERKEIAE

L
Length:1,351
Mass (Da):156,207
Last modified:May 24, 2005 - v1
Checksum:iB4AAFA88FAD0433D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAFI02000196 Genomic DNA. Translation: EAL61067.1.
RefSeqiXP_629462.1. XM_629460.1.

Genome annotation databases

EnsemblProtistsiDDB0232401; DDB0232401; DDB_G0292786.
GeneIDi8628852.
KEGGiddi:DDB_G0292786.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAFI02000196 Genomic DNA. Translation: EAL61067.1.
RefSeqiXP_629462.1. XM_629460.1.

3D structure databases

ProteinModelPortaliQ54CS9.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi44689.DDB0232401.

Proteomic databases

PaxDbiQ54CS9.
PRIDEiQ54CS9.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblProtistsiDDB0232401; DDB0232401; DDB_G0292786.
GeneIDi8628852.
KEGGiddi:DDB_G0292786.

Organism-specific databases

dictyBaseiDDB_G0292786. rad50.

Phylogenomic databases

eggNOGiKOG0962. Eukaryota.
COG0419. LUCA.
InParanoidiQ54CS9.
KOiK10866.
OMAiVLLCHQE.
PhylomeDBiQ54CS9.

Enzyme and pathway databases

ReactomeiR-DDI-5693548. Sensing of DNA Double Strand Breaks.

Miscellaneous databases

PROiQ54CS9.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR027417. P-loop_NTPase.
IPR004584. Rad50_eukaryotes.
IPR013134. Zn_hook_RAD50.
[Graphical view]
PANTHERiPTHR18867. PTHR18867. 2 hits.
SUPFAMiSSF52540. SSF52540. 4 hits.
PROSITEiPS51131. ZN_HOOK. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRAD50_DICDI
AccessioniPrimary (citable) accession number: Q54CS9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 8, 2008
Last sequence update: May 24, 2005
Last modified: July 6, 2016
This is version 85 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Dictyostelium discoideum
    Dictyostelium discoideum: entries, gene names and cross-references to dictyBase
  2. SIMILARITY comments
    Index of protein domains and families

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.