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Protein

DNA repair and recombination protein RadA

Gene

radA

Organism
Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Experimental evidence at protein leveli

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

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

DNA damage, DNA recombination

Keywords - Ligandi

ATP-binding, DNA-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
DNA repair and recombination protein RadA
Cleaved into the following chain:
Gene namesi
Name:radA
Ordered Locus Names:PH0263
OrganismiPyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Taxonomic identifieri70601 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
Proteomesi
  • UP000000752 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000301611 – 152DNA repair and recombination protein RadA, 1st partSequence analysisAdd BLAST152
ChainiPRO_0000030162153 – 324Pho RadA inteinSequence analysisAdd BLAST172
ChainiPRO_0000030163325 – 529DNA repair and recombination protein RadA, 2nd partSequence analysisAdd BLAST205

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

STRINGi70601.PH0263.

Structurei

Secondary structure

1529
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi159 – 164Combined sources6
Beta strandi167 – 172Combined sources6
Helixi173 – 184Combined sources12
Beta strandi187 – 189Combined sources3
Beta strandi192 – 196Combined sources5
Beta strandi198 – 205Combined sources8
Turni207 – 209Combined sources3
Beta strandi212 – 216Combined sources5
Beta strandi219 – 233Combined sources15
Beta strandi238 – 241Combined sources4
Beta strandi246 – 258Combined sources13
Helixi259 – 261Combined sources3
Beta strandi267 – 272Combined sources6
Helixi273 – 277Combined sources5
Beta strandi278 – 280Combined sources3
Beta strandi285 – 307Combined sources23
Turni309 – 311Combined sources3
Beta strandi312 – 315Combined sources4
Beta strandi320 – 323Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2LQMNMR-A153-324[»]
4E2TX-ray1.75A/B153-324[»]
4E2UX-ray1.58A151-324[»]
ProteinModelPortaliO58001.
SMRiO58001.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiarCOG00415. Archaea.
COG0468. LUCA.
COG1372. LUCA.
HOGENOMiHOG000227426.
KOiK04483.
OMAiSGKCFAK.

Family and domain databases

CDDicd01123. Rad51_DMC1_radA. 1 hit.
Gene3Di2.170.16.10. 1 hit.
3.40.50.300. 2 hits.
HAMAPiMF_00348. RadA_arch. 1 hit.
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.
IPR030934. Intein_C.
IPR006141. Intein_N.
IPR027417. P-loop_NTPase.
IPR033925. Rad51_DMC1_RadA.
IPR020588. RecA_ATP-bd.
IPR020587. RecA_monomer-monomer_interface.
[Graphical view]
PfamiPF08423. Rad51. 2 hits.
[Graphical view]
SMARTiSM00278. HhH1. 2 hits.
SM00305. HintC. 1 hit.
SM00306. HintN. 1 hit.
[Graphical view]
SUPFAMiSSF47794. SSF47794. 1 hit.
SSF51294. SSF51294. 1 hit.
SSF52540. SSF52540. 2 hits.
TIGRFAMsiTIGR01443. intein_Cterm. 1 hit.
TIGR01445. intein_Nterm. 1 hit.
TIGR02236. recomb_radA. 1 hit.
PROSITEiPS50818. INTEIN_C_TER. 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.

O58001-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MMIMVKKGSD PEVVEIDEIE GLGLELEEES TTSKKKKKEK EIKSIEDLPG
60 70 80 90 100
VGPATAEKLR EAGFDTLEAI AVASPIELKE VAGISEGAAL KIIQAARKAA
110 120 130 140 150
NLGTFMRADE YLKKRESIGR ISTGSKSLDK LLGGGIETQA ITEVFGEFGS
160 170 180 190 200
GKCFARDTEV YYENDTVPHM ESIEEMYSKY ASMNGELPFD NGYAVPLDNV
210 220 230 240 250
FVYTLDIASG EIKKTRASYI YREKVEKLIE IKLSSGYSLK VTPSHPVLLF
260 270 280 290 300
RDGLQWVPAA EVKPGDVVVG VREEVLRRRI ISKGELEFHE VSSVRIIDYN
310 320 330 340 350
NWVYDLVIPE THNFIAPNGL VLHNTQLAHT LAVMVQLPPE EGGLNGSVIW
360 370 380 390 400
IDTENTFRPE RIREIAKNRG LDPDEVLKHI YVARAFNSNH QMLLVQQAED
410 420 430 440 450
KIKELLNTDK PVKLLIVDSL TSHFRSEYIG RGALAERQQK LAKHLADLHR
460 470 480 490 500
LANLYEIAVF VTNQVQARPD AFFGDPTRPI GGHILAHSAT LRVYLRKGKG
510 520
GKRVARLIDA PHLPEGEAVF RITEKGIED
Length:529
Mass (Da):58,949
Last modified:August 1, 1998 - v1
Checksum:i1003B397D1A51567
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000001 Genomic DNA. Translation: BAA29335.1.
PIRiH71450.

Genome annotation databases

EnsemblBacteriaiBAA29335; BAA29335; BAA29335.
KEGGipho:PH0263.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000001 Genomic DNA. Translation: BAA29335.1.
PIRiH71450.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2LQMNMR-A153-324[»]
4E2TX-ray1.75A/B153-324[»]
4E2UX-ray1.58A151-324[»]
ProteinModelPortaliO58001.
SMRiO58001.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi70601.PH0263.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAA29335; BAA29335; BAA29335.
KEGGipho:PH0263.

Phylogenomic databases

eggNOGiarCOG00415. Archaea.
COG0468. LUCA.
COG1372. LUCA.
HOGENOMiHOG000227426.
KOiK04483.
OMAiSGKCFAK.

Family and domain databases

CDDicd01123. Rad51_DMC1_radA. 1 hit.
Gene3Di2.170.16.10. 1 hit.
3.40.50.300. 2 hits.
HAMAPiMF_00348. RadA_arch. 1 hit.
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.
IPR030934. Intein_C.
IPR006141. Intein_N.
IPR027417. P-loop_NTPase.
IPR033925. Rad51_DMC1_RadA.
IPR020588. RecA_ATP-bd.
IPR020587. RecA_monomer-monomer_interface.
[Graphical view]
PfamiPF08423. Rad51. 2 hits.
[Graphical view]
SMARTiSM00278. HhH1. 2 hits.
SM00305. HintC. 1 hit.
SM00306. HintN. 1 hit.
[Graphical view]
SUPFAMiSSF47794. SSF47794. 1 hit.
SSF51294. SSF51294. 1 hit.
SSF52540. SSF52540. 2 hits.
TIGRFAMsiTIGR01443. intein_Cterm. 1 hit.
TIGR01445. intein_Nterm. 1 hit.
TIGR02236. recomb_radA. 1 hit.
PROSITEiPS50818. INTEIN_C_TER. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
PS50162. RECA_2. 2 hits.
PS50163. RECA_3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRADA_PYRHO
AccessioniPrimary (citable) accession number: O58001
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: August 1, 1998
Last modified: November 30, 2016
This is version 122 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

3D-structure, Complete proteome

Documents

  1. Intein-containing proteins
    List of intein-containing protein entries
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.