DNA repair and recombination protein RadA - Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)

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O58001 (RADA_PYRHO) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 101. History...

Clusters with 100%, 90%, 50% identity |

Documents (3) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
DNA repair and recombination protein RadA

Cleaved into the following chain:

Pho RadA intein

Gene names

Name:	radA
Ordered Locus Names:	PH0263

Organism

Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3) [Complete proteome] [HAMAP]

Taxonomic identifier

70601 [NCBI]

Taxonomic lineage

Archaea › Euryarchaeota › Thermococci › Thermococcales › Thermococcaceae › Pyrococcus ›

Protein attributes

Sequence length	529 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	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. HAMAP-Rule MF_00348
Post-translational modification	This protein undergoes a protein self splicing that involves a post-translational excision of the intervening region (intein) followed by peptide ligation Potential. HAMAP-Rule MF_00348
Miscellaneous	The intein interrupts the ATP-binding site. HAMAP-Rule MF_00348
Sequence similarities	Belongs to the eukaryotic RecA-like protein family.

Ontologies

Keywords
Biological process	DNA damage DNA recombination
Ligand	ATP-binding DNA-binding Nucleotide-binding
PTM	Autocatalytic cleavage Protein splicing
Technical term	3D-structure Complete proteome
Gene Ontology (GO)
Biological_process	DNA recombination Inferred from electronic annotation. Source: HAMAP DNA repair Inferred from electronic annotation. Source: HAMAP intein-mediated protein splicing Inferred from electronic annotation. Source: InterPro
Molecular_function	ATP binding Inferred from electronic annotation. Source: HAMAP DNA-dependent ATPase activity Inferred from electronic annotation. Source: HAMAP damaged DNA binding Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 152

152

DNA repair and recombination protein RadA, 1st part Potential

PRO_0000030161

Chain

153 – 324

172

Pho RadA intein Potential

PRO_0000030162

Chain

325 – 529

205

DNA repair and recombination protein RadA, 2nd part Potential

PRO_0000030163

Secondary structure

529

Helix Strand Turn

Details...

Sequences

Sequence

Length

Mass (Da)

Tools

O58001 [UniParc].

Last modified August 1, 1998. Version 1.
Checksum: 1003B397D1A51567
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FASTA

529

58,949

        10         20         30         40         50         60 
MMIMVKKGSD PEVVEIDEIE GLGLELEEES TTSKKKKKEK EIKSIEDLPG VGPATAEKLR 

        70         80         90        100        110        120 
EAGFDTLEAI AVASPIELKE VAGISEGAAL KIIQAARKAA NLGTFMRADE YLKKRESIGR 

       130        140        150        160        170        180 
ISTGSKSLDK LLGGGIETQA ITEVFGEFGS GKCFARDTEV YYENDTVPHM ESIEEMYSKY 

       190        200        210        220        230        240 
ASMNGELPFD NGYAVPLDNV FVYTLDIASG EIKKTRASYI YREKVEKLIE IKLSSGYSLK 

       250        260        270        280        290        300 
VTPSHPVLLF RDGLQWVPAA EVKPGDVVVG VREEVLRRRI ISKGELEFHE VSSVRIIDYN 

       310        320        330        340        350        360 
NWVYDLVIPE THNFIAPNGL VLHNTQLAHT LAVMVQLPPE EGGLNGSVIW IDTENTFRPE 

       370        380        390        400        410        420 
RIREIAKNRG LDPDEVLKHI YVARAFNSNH QMLLVQQAED KIKELLNTDK PVKLLIVDSL 

       430        440        450        460        470        480 
TSHFRSEYIG RGALAERQQK LAKHLADLHR LANLYEIAVF VTNQVQARPD AFFGDPTRPI 

       490        500        510        520 
GGHILAHSAT LRVYLRKGKG GKRVARLIDA PHLPEGEAVF RITEKGIED

« Hide

References

[1]

"Complete sequence and gene organization of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii OT3."
Kawarabayasi Y., Sawada M., Horikawa H., Haikawa Y., Hino Y., Yamamoto S., Sekine M., Baba S., Kosugi H., Hosoyama A., Nagai Y., Sakai M., Ogura K., Otsuka R., Nakazawa H., Takamiya M., Ohfuku Y., Funahashi T.

Kikuchi H.
DNA Res. 5:55-76(1998) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3.

Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

BA000001 Genomic DNA. Translation: BAA29335.1.

PIR

H71450.

RefSeq

NP_142255.1. NC_000961.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2LQM	NMR	-	A	154-324	[»]
4E2T	X-ray	1.75	A/B	154-324	[»]
4E2U	X-ray	1.58	A	154-324	[»]

ProteinModelPortal

O58001.

SMR

O58001. Positions 43-152, 325-529.

ModBase

Search...

Protein-protein interaction databases

STRING

70601.PH0263.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblBacteria

BAA29335; BAA29335; BAA29335.

GeneID

1444149.

KEGG

pho:PH0263.

Organism-specific databases

CMR

Search...

Phylogenomic databases

eggNOG

COG1372.

HOGENOM

HOG000227426.

K04483.

OMA

HNTQLAH.

ProtClustDB

CLSK2561163.

Enzyme and pathway databases

BioCyc

PHOR70601:GJWR-250-MONOMER.

Family and domain databases

HAMAP

MF_00348. RadA.

InterPro

IPR013632. DNA_recomb/repair_Rad51_C.
IPR011938. DNA_recomb/repair_RadA.
IPR020588. DNA_recomb_RecA/RadB_ATP-bd.
IPR010995. DNA_repair_Rad51/TF_NusA_a-hlx.
IPR003586. Hint_dom_C.
IPR003587. Hint_dom_N.
IPR003583. Hlx-hairpin-Hlx_DNA-bd_motif.
IPR006141. Intein_splice_site.
IPR020587. RecA_monomer-monomer_interface.
[Graphical view]

PANTHER

PTHR22942:SF11. PTHR22942:SF11. 1 hit.

Pfam

PF08423. Rad51. 2 hits.
[Graphical view]

SMART

SM00278. HhH1. 2 hits.
SM00305. HintC. 1 hit.
SM00306. HintN. 1 hit.
[Graphical view]

SUPFAM

SSF47794. Rad51_N. 1 hit.

TIGRFAMs

TIGR01443. intein_Cterm. 1 hit.
TIGR01445. intein_Nterm. 1 hit.
TIGR02236. recomb_radA. 1 hit.

PROSITE

PS50818. INTEIN_C_TER. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
PS50162. RECA_2. 2 hits.
PS50163. RECA_3. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

RADA_PYRHO

Accession

Primary (citable) accession number: O58001

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 27, 2001
Last sequence update:	August 1, 1998
Last modified:	May 1, 2013
This is version 101 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program

Relevant documents

Intein-containing proteins

List of intein-containing protein entries

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Cleaved into the following chain:

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Family and domain databases

Entry information

Relevant documents