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Protein

DNA repair and recombination protein RadA

Gene

radA

Organism
Thermococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Protein inferred from homologyi

Functioni

Involved in DNA repair and in homologous recombination. Binds and assemble on single-stranded DNA to form a nucleoprotein filament. Hydrolyzes ATP in a ssDNA-dependent manner and promotes DNA strand exchange between homologous DNA molecules (By similarity).By similarity

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. damaged DNA binding Source: InterPro
  3. DNA-dependent ATPase activity Source: InterPro
  4. endonuclease activity Source: UniProtKB-KW

GO - Biological processi

  1. DNA repair Source: InterPro
  2. intein-mediated protein splicing Source: InterPro
  3. intron homing Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Endonuclease, Hydrolase, Nuclease

Keywords - Biological processi

DNA damage, DNA recombination, Intron homing

Keywords - Ligandi

ATP-binding, DNA-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciTKOD69014:GH72-1936-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA repair and recombination protein RadA
Cleaved into the following chain:
Gene namesi
Name:radA
Ordered Locus Names:TK1899
OrganismiThermococcus kodakaraensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
Taxonomic identifieri69014 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaeThermococcus
ProteomesiUP000000536: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 149149DNA repair and recombination protein RadA, 1st partSequence AnalysisPRO_0000030164Add
BLAST
Chaini150 – 631482Pko RadA inteinSequence AnalysisPRO_0000030165Add
BLAST
Chaini632 – 836205DNA repair and recombination protein RadA, 2nd partSequence AnalysisPRO_0000030166Add
BLAST

Post-translational modificationi

This protein undergoes a protein self splicing that involves a post-translational excision of the intervening region (intein) followed by peptide ligation.Curated

Keywords - PTMi

Autocatalytic cleavage, Protein splicing

Interactioni

Protein-protein interaction databases

IntActiQ5JET4. 1 interaction.
MINTiMINT-8377210.
STRINGi69014.TK1899.

Structurei

3D structure databases

ProteinModelPortaliQ5JET4.
SMRiQ5JET4. Positions 41-149, 632-836.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini285 – 410126DOD-type homing endonucleaseAdd
BLAST

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG1372.
HOGENOMiHOG000154068.
InParanoidiQ5JET4.
KOiK04483.
OMAiSGKCFAK.

Family and domain databases

Gene3Di2.170.16.10. 2 hits.
3.10.28.10. 1 hit.
3.40.50.300. 2 hits.
HAMAPiMF_00348. RadA.
InterProiIPR013632. DNA_recomb/repair_Rad51_C.
IPR011938. DNA_recomb/repair_RadA.
IPR010995. DNA_repair_Rad51/TF_NusA_a-hlx.
IPR028992. Hedgehog/Intein_dom.
IPR003586. Hint_dom_C.
IPR003587. Hint_dom_N.
IPR003583. Hlx-hairpin-Hlx_DNA-bd_motif.
IPR027434. Homing_endonucl.
IPR006142. INTEIN.
IPR004042. Intein_endonuc.
IPR006141. Intein_splice_site.
IPR027417. P-loop_NTPase.
IPR020588. RecA_ATP-bd.
IPR020587. RecA_monomer-monomer_interface.
[Graphical view]
PfamiPF14528. LAGLIDADG_3. 1 hit.
PF08423. Rad51. 2 hits.
[Graphical view]
PRINTSiPR00379. INTEIN.
SMARTiSM00278. HhH1. 2 hits.
SM00305. HintC. 1 hit.
SM00306. HintN. 1 hit.
[Graphical view]
SUPFAMiSSF47794. SSF47794. 1 hit.
SSF51294. SSF51294. 2 hits.
SSF52540. SSF52540. 2 hits.
SSF55608. SSF55608. 1 hit.
TIGRFAMsiTIGR01443. intein_Cterm. 1 hit.
TIGR01445. intein_Nterm. 1 hit.
TIGR02236. recomb_radA. 1 hit.
PROSITEiPS50818. INTEIN_C_TER. 1 hit.
PS50819. INTEIN_ENDONUCLEASE. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
PS50162. RECA_2. 2 hits.
PS50163. RECA_3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q5JET4-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MARKKKVEDE VKELEEFEEL DVEESLSSSD KQSKPEKKIS ALEDLPGVGP
60 70 80 90 100
ATAEKLREAG YDTIEAIAVA SPLELKEIAG ISEGAALKII QAAREAANIG
110 120 130 140 150
TFMRADEYMK RRTTIGKIST GSKALDKLLG GGIETQAITE VFGEFGSGKC
160 170 180 190 200
FAKDTKVYYE NDTLVHFESI EDMYHKYASL GREVPFDNGY AVPLETVSVY
210 220 230 240 250
TFDPKTGEVK RTKASYIYRE KVEKLAEIRL SNGYLLRITL LHPVLVFRNG
260 270 280 290 300
LQWVPAGMIK PGDLIVGIRS VPANAATIEE SEAYFLGLFV AEGTSNPLSI
310 320 330 340 350
TTGSEELKDF IVSFIEDHDG YTPTVEVRRG LYRILFRKKT AEWLGELATS
360 370 380 390 400
NASTKVVPER VLNAGESAIA AFLAGYLDGD GYLTESIVEL VTKSRELADG
410 420 430 440 450
LVFLLKRLGI TPRISQKTIE GSVYYRIYIT GEDRKTFEKV LEKSRIKPGE
460 470 480 490 500
MNEGGVGRYP PALGKFLGKL YSEFRLPKRD NETAYHILTR SRNVWFTEKT
510 520 530 540 550
LSRIEEYFRE ALEKLSEARK ALEMGDKPEL PFPWTAITKY GFTDRQVANY
560 570 580 590 600
RTRGLPKRPE LKEKVVSALL KEIERLEGVA KLALETIELA RRLEFHEVSS
610 620 630 640 650
VEVVDYNDWV YDLVIPETHN FIAPNGLVLH NTQLAHTLAV MVQKPPEEGG
660 670 680 690 700
LGGSVIWIDT ENTFRPERIK QIAENRGLDP EETLKNIYVA RAFNSNHQML
710 720 730 740 750
LVEKAEEIIK EKAESDRPVK LLVVDSLMAH FRAEYVGRGT LAERQQKLAK
760 770 780 790 800
HLADLHRLAD LYDIAVFVTN QVQAKPDAFF GDPTRPVGGH ILAHSATLRV
810 820 830
YLRKGKAGKR VARLIDSPHL PEGEAVFRIT EKGVED
Length:836
Mass (Da):93,707
Last modified:February 15, 2005 - v1
Checksum:i57387B98C8317F04
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP006878 Genomic DNA. Translation: BAD86088.1.
RefSeqiYP_184312.1. NC_006624.1.

Genome annotation databases

EnsemblBacteriaiBAD86088; BAD86088; TK1899.
GeneIDi3233960.
KEGGitko:TK1899.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP006878 Genomic DNA. Translation: BAD86088.1.
RefSeqiYP_184312.1. NC_006624.1.

3D structure databases

ProteinModelPortaliQ5JET4.
SMRiQ5JET4. Positions 41-149, 632-836.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ5JET4. 1 interaction.
MINTiMINT-8377210.
STRINGi69014.TK1899.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAD86088; BAD86088; TK1899.
GeneIDi3233960.
KEGGitko:TK1899.

Phylogenomic databases

eggNOGiCOG1372.
HOGENOMiHOG000154068.
InParanoidiQ5JET4.
KOiK04483.
OMAiSGKCFAK.

Enzyme and pathway databases

BioCyciTKOD69014:GH72-1936-MONOMER.

Family and domain databases

Gene3Di2.170.16.10. 2 hits.
3.10.28.10. 1 hit.
3.40.50.300. 2 hits.
HAMAPiMF_00348. RadA.
InterProiIPR013632. DNA_recomb/repair_Rad51_C.
IPR011938. DNA_recomb/repair_RadA.
IPR010995. DNA_repair_Rad51/TF_NusA_a-hlx.
IPR028992. Hedgehog/Intein_dom.
IPR003586. Hint_dom_C.
IPR003587. Hint_dom_N.
IPR003583. Hlx-hairpin-Hlx_DNA-bd_motif.
IPR027434. Homing_endonucl.
IPR006142. INTEIN.
IPR004042. Intein_endonuc.
IPR006141. Intein_splice_site.
IPR027417. P-loop_NTPase.
IPR020588. RecA_ATP-bd.
IPR020587. RecA_monomer-monomer_interface.
[Graphical view]
PfamiPF14528. LAGLIDADG_3. 1 hit.
PF08423. Rad51. 2 hits.
[Graphical view]
PRINTSiPR00379. INTEIN.
SMARTiSM00278. HhH1. 2 hits.
SM00305. HintC. 1 hit.
SM00306. HintN. 1 hit.
[Graphical view]
SUPFAMiSSF47794. SSF47794. 1 hit.
SSF51294. SSF51294. 2 hits.
SSF52540. SSF52540. 2 hits.
SSF55608. SSF55608. 1 hit.
TIGRFAMsiTIGR01443. intein_Cterm. 1 hit.
TIGR01445. intein_Nterm. 1 hit.
TIGR02236. recomb_radA. 1 hit.
PROSITEiPS50818. INTEIN_C_TER. 1 hit.
PS50819. INTEIN_ENDONUCLEASE. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
PS50162. RECA_2. 2 hits.
PS50163. RECA_3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Complete genome sequence of the hyperthermophilic archaeon Thermococcus kodakaraensis KOD1 and comparison with Pyrococcus genomes."
    Fukui T., Atomi H., Kanai T., Matsumi R., Fujiwara S., Imanaka T.
    Genome Res. 15:352-363(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC BAA-918 / JCM 12380 / KOD1.

Entry informationi

Entry nameiRADA_THEKO
AccessioniPrimary (citable) accession number: Q5JET4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 30, 2005
Last sequence update: February 15, 2005
Last modified: January 7, 2015
This is version 76 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Miscellaneous

The intein interrupts the ATP-binding site.

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Intein-containing proteins
    List of intein-containing protein entries
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.