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Protein

Crossover junction endodeoxyribonuclease RuvC

Gene

ruvC

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Nuclease that resolves Holliday junction intermediates in genetic recombination. Cleaves the cruciform structure in supercoiled DNA by nicking to strands with the same polarity at sites symmetrically opposed at the junction in the homologous arms and leaves a 5'-terminal phosphate and a 3'-terminal hydroxyl group.2 Publications

Catalytic activityi

Endonucleolytic cleavage at a junction such as a reciprocal single-stranded crossover between two homologous DNA duplexes (Holliday junction).

Cofactori

Mg2+Note: Binds 1 Mg2+ ion per subunit.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi8 – 81Magnesium
Metal bindingi67 – 671Magnesium
Metal bindingi139 – 1391Magnesium
Metal bindingi142 – 1421Magnesium

GO - Molecular functioni

GO - Biological processi

  • recombinational repair Source: EcoCyc
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Nuclease

Keywords - Biological processi

DNA damage, DNA recombination, DNA repair

Keywords - Ligandi

Magnesium, Metal-binding

Enzyme and pathway databases

BioCyciEcoCyc:EG10925-MONOMER.
ECOL316407:JW1852-MONOMER.
MetaCyc:EG10925-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Crossover junction endodeoxyribonuclease RuvC (EC:3.1.22.4)
Alternative name(s):
Holliday junction nuclease RuvC
Holliday junction resolvase RuvC
Gene namesi
Name:ruvC
Ordered Locus Names:b1863, JW1852
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000000318 Componenti: Chromosome UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG10925. ruvC.

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: UniProtKB-SubCell
  • Holliday junction resolvase complex Source: EcoCyc
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed2 Publications
Chaini2 – 173172Crossover junction endodeoxyribonuclease RuvCPRO_0000183096Add
BLAST

Proteomic databases

PaxDbiP0A814.
PRIDEiP0A814.

Interactioni

Subunit structurei

Homodimer.

Protein-protein interaction databases

DIPiDIP-35952N.
IntActiP0A814. 3 interactions.
STRINGi511145.b1863.

Structurei

Secondary structure

1
173
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi3 – 86Combined sources
Beta strandi11 – 2212Combined sources
Beta strandi25 – 3511Combined sources
Helixi41 – 5919Combined sources
Beta strandi62 – 687Combined sources
Turni75 – 773Combined sources
Helixi78 – 9316Combined sources
Turni94 – 963Combined sources
Beta strandi99 – 1035Combined sources
Helixi104 – 1118Combined sources
Beta strandi113 – 1164Combined sources
Helixi119 – 12911Combined sources
Helixi141 – 15212Combined sources
Beta strandi155 – 1573Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1HJRX-ray2.50A/B/C/D2-159[»]
ProteinModelPortaliP0A814.
SMRiP0A814. Positions 2-159.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0A814.

Family & Domainsi

Sequence similaritiesi

Belongs to the RuvC family.Curated

Phylogenomic databases

eggNOGiCOG0817.
HOGENOMiHOG000012181.
InParanoidiP0A814.
KOiK01159.
OMAiYTALQMK.
OrthoDBiEOG6RG044.
PhylomeDBiP0A814.

Family and domain databases

Gene3Di3.30.420.10. 1 hit.
HAMAPiMF_00034. RuvC.
InterProiIPR012337. RNaseH-like_dom.
IPR020563. X-over_junc_endoDNase_Mg_BS.
IPR002176. X-over_junc_endoDNase_RuvC.
[Graphical view]
PfamiPF02075. RuvC. 1 hit.
[Graphical view]
PRINTSiPR00696. RSOLVASERUVC.
SUPFAMiSSF53098. SSF53098. 1 hit.
TIGRFAMsiTIGR00228. ruvC. 1 hit.
PROSITEiPS01321. RUVC. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

P0A814-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAIILGIDPG SRVTGYGVIR QVGRQLSYLG SGCIRTKVDD LPSRLKLIYA
60 70 80 90 100
GVTEIITQFQ PDYFAIEQVF MAKNADSALK LGQARGVAIV AAVNQELPVF
110 120 130 140 150
EYAARQVKQT VVGIGSAEKS QVQHMVRTLL KLPANPQADA ADALAIAITH
160 170
CHVSQNAMQM SESRLNLARG RLR
Length:173
Mass (Da):18,747
Last modified:January 23, 2007 - v2
Checksum:i2170DCFA4AD43FE1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X59551 Genomic DNA. Translation: CAA42128.1.
D10165 Genomic DNA. Translation: BAA01032.1.
U00096 Genomic DNA. Translation: AAC74933.1.
AP009048 Genomic DNA. Translation: BAA15674.1.
PIRiD38113.
RefSeqiNP_416377.1. NC_000913.3.

Genome annotation databases

EnsemblBacteriaiAAC74933; AAC74933; b1863.
BAA15674; BAA15674; BAA15674.
GeneIDi946378.
KEGGiecj:Y75_p1839.
eco:b1863.
PATRICi32119049. VBIEscCol129921_1942.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X59551 Genomic DNA. Translation: CAA42128.1.
D10165 Genomic DNA. Translation: BAA01032.1.
U00096 Genomic DNA. Translation: AAC74933.1.
AP009048 Genomic DNA. Translation: BAA15674.1.
PIRiD38113.
RefSeqiNP_416377.1. NC_000913.3.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1HJRX-ray2.50A/B/C/D2-159[»]
ProteinModelPortaliP0A814.
SMRiP0A814. Positions 2-159.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-35952N.
IntActiP0A814. 3 interactions.
STRINGi511145.b1863.

Proteomic databases

PaxDbiP0A814.
PRIDEiP0A814.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC74933; AAC74933; b1863.
BAA15674; BAA15674; BAA15674.
GeneIDi946378.
KEGGiecj:Y75_p1839.
eco:b1863.
PATRICi32119049. VBIEscCol129921_1942.

Organism-specific databases

EchoBASEiEB0918.
EcoGeneiEG10925. ruvC.

Phylogenomic databases

eggNOGiCOG0817.
HOGENOMiHOG000012181.
InParanoidiP0A814.
KOiK01159.
OMAiYTALQMK.
OrthoDBiEOG6RG044.
PhylomeDBiP0A814.

Enzyme and pathway databases

BioCyciEcoCyc:EG10925-MONOMER.
ECOL316407:JW1852-MONOMER.
MetaCyc:EG10925-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP0A814.
PROiP0A814.

Family and domain databases

Gene3Di3.30.420.10. 1 hit.
HAMAPiMF_00034. RuvC.
InterProiIPR012337. RNaseH-like_dom.
IPR020563. X-over_junc_endoDNase_Mg_BS.
IPR002176. X-over_junc_endoDNase_RuvC.
[Graphical view]
PfamiPF02075. RuvC. 1 hit.
[Graphical view]
PRINTSiPR00696. RSOLVASERUVC.
SUPFAMiSSF53098. SSF53098. 1 hit.
TIGRFAMsiTIGR00228. ruvC. 1 hit.
PROSITEiPS01321. RUVC. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Resolution of Holliday junctions in Escherichia coli: identification of the ruvC gene product as a 19-kilodalton protein."
    Sharples G.J., Lloyd R.G.
    J. Bacteriol. 173:7711-7715(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "Molecular analysis of the Escherichia coli ruvC gene, which encodes a Holliday junction-specific endonuclease."
    Takahagi M., Iwasaki H., Nakata A., Shinagawa H.
    J. Bacteriol. 173:5747-5753(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  5. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  6. "Escherichia coli RuvC protein is an endonuclease that resolves the Holliday structure."
    Iwasaki H., Takahagi M., Shiba T., Nakata A., Shinagawa H.
    EMBO J. 10:4381-4389(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 2-42, FUNCTION.
  7. "Formation and resolution of recombination intermediates by E. coli RecA and RuvC proteins."
    Dunderdale H.J., Benson F.E., Parsons C.A., Sharples G.J., Lloyd R.G., West S.C.
    Nature 354:506-510(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 2-25, FUNCTION.
  8. Cited for: SUBCELLULAR LOCATION.
    Strain: K12.
  9. "Atomic structure of the RuvC resolvase: a holliday junction-specific endonuclease from E. coli."
    Ariyoshi M., Vassylyev D.G., Iwasaki H., Nakamura H., Shinagawa H., Morikawa K.
    Cell 78:1063-1072(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.5 ANGSTROMS).
  10. "Processing of recombination intermediates by the RuvABC proteins."
    West S.C.
    Annu. Rev. Genet. 31:213-244(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: REVIEW.

Entry informationi

Entry nameiRUVC_ECOLI
AccessioniPrimary (citable) accession number: P0A814
Secondary accession number(s): P24239
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 7, 2005
Last sequence update: January 23, 2007
Last modified: June 24, 2015
This is version 87 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.