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UniProtKB - Q54CS9 (RAD50_DICDI)

Entry version 105 (07 Apr 2021)
Sequence version 1 (24 May 2005)
Previous versions | rss
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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

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>-Protein inferred from homologyi <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>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

<p>This subsection of the 'Function' section provides information relevant to cofactors. A cofactor is any non-protein substance required for a protein to be catalytically active. Some cofactors are inorganic, such as the metal atoms zinc, iron, and copper in various oxidation states. Others, such as most vitamins, are organic.<p><a href='/help/cofactor' target='_top'>More...</a></p>Cofactori

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section indicates at which position the protein binds a given metal ion. The nature of the metal is indicated in the 'Description' field.<p><a href='/help/metal' target='_top'>More...</a></p>Metal bindingi732ZincPROSITE-ProRule annotation1
Metal bindingi735ZincPROSITE-ProRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes a region in the protein which binds nucleotide phosphates. It always involves more than one amino acid and includes all residues involved in nucleotide-binding.<p><a href='/help/np_bind' target='_top'>More...</a></p>Nucleotide bindingi34 – 41ATPSequence analysis8

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

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

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...Reactomei		R-DDI-5685939, HDR through MMEJ (alt-NHEJ)
R-DDI-5693548, Sensing of DNA Double Strand Breaks
R-DDI-5693565, Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks
R-DDI-5693616, Presynaptic phase of homologous DNA pairing and strand exchange

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
DNA repair protein RAD50 (EC:3.6.-.-)
Alternative name(s):
DNA recombination/repair protein
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:rad50
ORF Names:DDB_G0292786
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiDictyostelium discoideum (Slime mold)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri44689 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryota › Amoebozoa › Evosea › Eumycetozoa › Dictyostelia › Dictyosteliales › Dictyosteliaceae › Dictyostelium
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000002195 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componentsi: Chromosome 6, Unassembled WGS sequence

Organism-specific databases

Dictyostelium discoideum online informatics resource

More...dictyBasei		DDB_G0292786, rad50

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Keywords - Cellular componenti

Chromosome, Nucleus, Telomere

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00003275941 – 1351DNA repair protein RAD50Add BLAST1351

Proteomic databases

PaxDb, a database of protein abundance averages across all three domains of life

More...PaxDbi		Q54CS9

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Probable component of the MRN complex with mre11.

By similarity

Protein-protein interaction databases

STRING: functional protein association networks

More...STRINGi		44689.DDB0232401

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...SMRi		Q54CS9

Database of comparative protein structure models

More...ModBasei		Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family%5Fand%5Fdomains%5Fsection">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini688 – 784Zinc-hookPROSITE-ProRule annotationAdd BLAST97

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and domains' section denotes the positions of regions of coiled coil within the protein.<p><a href='/help/coiled' target='_top'>More...</a></p>Coiled coili182 – 224Sequence analysisAdd BLAST43
Coiled coili250 – 290Sequence analysisAdd BLAST41
Coiled coili338 – 358Sequence analysisAdd BLAST21
Coiled coili458 – 562Sequence analysisAdd BLAST105
Coiled coili606 – 715Sequence analysisAdd BLAST110
Coiled coili760 – 1045Sequence analysisAdd BLAST286
Coiled coili1074 – 1128Sequence analysisAdd BLAST55

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes the position of regions of compositional bias within the protein and the particular amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi552 – 582Asn-richAdd BLAST31
Compositional biasi583 – 587Poly-Asp5
Compositional biasi667 – 684Asn-richAdd BLAST18

<p>This subsection of the 'Family and domains' section provides general information on the biological role of a domain. The term 'domain' is intended here in its wide acceptation, it may be a structural domain, a transmembrane region or a functional domain. Several domains are described in this subsection.<p><a href='/help/domain_cc' target='_top'>More...</a></p>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

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the SMC family. RAD50 subfamily.Curated

Keywords - Domaini

Coiled coil

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		KOG0962, Eukaryota

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		CLU_006184_0_0_1

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		Q54CS9

Identification of Orthologs from Complete Genome Data

More...OMAi		CFGVNCG

Database for complete collections of gene phylogenies

More...PhylomeDBi		Q54CS9

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR027417, P-loop_NTPase
IPR038729, Rad50/SbcC_AAA
IPR013134, Zn_hook_RAD50

Pfam protein domain database

More...Pfami		View protein in Pfam
PF13476, AAA_23, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF52540, SSF52540, 2 hits

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS51131, ZN_HOOK, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>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
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iB4AAFA88FAD0433D
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...EMBLi

GenBank nucleotide sequence database

More...GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...DDBJi
Links Updated
AAFI02000196 Genomic DNA Translation: EAL61067.1

NCBI Reference Sequences

More...RefSeqi		XP_629462.1, XM_629460.1

Genome annotation databases

Ensembl protists genome annotation project

More...EnsemblProtistsi		EAL61067; EAL61067; DDB_G0292786

Database of genes from NCBI RefSeq genomes

More...GeneIDi		8628852

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		ddi:DDB_G0292786

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>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

SMRiQ54CS9
ModBaseiSearch...

Protein-protein interaction databases

STRINGi44689.DDB0232401

Proteomic databases

PaxDbiQ54CS9

Genome annotation databases

EnsemblProtistsiEAL61067; EAL61067; DDB_G0292786
GeneIDi8628852
KEGGiddi:DDB_G0292786

Organism-specific databases

dictyBaseiDDB_G0292786, rad50

Phylogenomic databases

eggNOGiKOG0962, Eukaryota
HOGENOMiCLU_006184_0_0_1
InParanoidiQ54CS9
OMAiCFGVNCG
PhylomeDBiQ54CS9

Enzyme and pathway databases

ReactomeiR-DDI-5685939, HDR through MMEJ (alt-NHEJ)
R-DDI-5693548, Sensing of DNA Double Strand Breaks
R-DDI-5693565, Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks
R-DDI-5693616, Presynaptic phase of homologous DNA pairing and strand exchange

Miscellaneous databases

Protein Ontology

More...PROi		PR:Q54CS9

Family and domain databases

InterProiView protein in InterPro
IPR027417, P-loop_NTPase
IPR038729, Rad50/SbcC_AAA
IPR013134, Zn_hook_RAD50
PfamiView protein in Pfam
PF13476, AAA_23, 1 hit
SUPFAMiSSF52540, SSF52540, 2 hits
PROSITEiView protein in PROSITE
PS51131, ZN_HOOK, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...ProtoNeti		Search...

MobiDB: a database of protein disorder and mobility annotations

More...MobiDBi		Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiRAD50_DICDI
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: Q54CS9
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 8, 2008
Last sequence update: May 24, 2005
Last modified: April 7, 2021
This is version 105 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

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
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