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Protein

Ribonuclease H

Gene

RNH1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.

Catalytic activityi

Endonucleolytic cleavage to 5'-phosphomonoester.PROSITE-ProRule annotation

Cofactori

Mg2+By similarityNote: Binds 1 Mg2+ ion per subunit. May bind a second metal ion at a regulatory site, or after substrate binding.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi193 – 1931Magnesium 1PROSITE-ProRule annotation
Metal bindingi193 – 1931Magnesium 2PROSITE-ProRule annotation
Metal bindingi235 – 2351Magnesium 1PROSITE-ProRule annotation
Metal bindingi264 – 2641Magnesium 1PROSITE-ProRule annotation
Metal bindingi338 – 3381Magnesium 2PROSITE-ProRule annotation

GO - Molecular functioni

  • magnesium ion binding Source: InterPro
  • nucleic acid binding Source: InterPro
  • RNA-DNA hybrid ribonuclease activity Source: SGD

GO - Biological processi

  • DNA replication, removal of RNA primer Source: GO_Central
  • RNA catabolic process Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Endonuclease, Hydrolase, Nuclease

Keywords - Ligandi

Magnesium, Metal-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-32915-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribonuclease H (EC:3.1.26.4)
Short name:
RNase H
Gene namesi
Name:RNH1
Ordered Locus Names:YMR234W
ORF Names:YM9959.16
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XIII

Organism-specific databases

EuPathDBiFungiDB:YMR234W.
SGDiS000004847. RNH1.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 348348Ribonuclease HPRO_0000195438Add
BLAST

Proteomic databases

MaxQBiQ04740.

Interactioni

Protein-protein interaction databases

BioGridi35412. 48 interactions.
DIPiDIP-6787N.
IntActiQ04740. 5 interactions.
MINTiMINT-624702.

Structurei

Secondary structure

1
348
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi6 – 105Combined sources
Beta strandi12 – 154Combined sources
Beta strandi17 – 215Combined sources
Helixi22 – 287Combined sources
Beta strandi29 – 313Combined sources
Beta strandi38 – 414Combined sources
Helixi43 – 508Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1QHKNMR-A5-51[»]
ProteinModelPortaliQ04740.
SMRiQ04740. Positions 5-51, 186-345.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ04740.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini184 – 346163RNase HPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the RNase H family.Curated
Contains 1 RNase H domain.PROSITE-ProRule annotation

Phylogenomic databases

GeneTreeiENSGT00390000003466.
HOGENOMiHOG000066052.
InParanoidiQ04740.
KOiK03469.
OMAiARPRYKK.
OrthoDBiEOG092C42S8.

Family and domain databases

Gene3Di3.30.420.10. 1 hit.
3.40.970.10. 2 hits.
InterProiIPR009027. Ribosomal_L9/RNase_H1_N.
IPR017067. RNase_H1_euk.
IPR011320. RNase_H1_N.
IPR012337. RNaseH-like_dom.
IPR002156. RNaseH_domain.
[Graphical view]
PfamiPF01693. Cauli_VI. 2 hits.
PF00075. RNase_H. 1 hit.
[Graphical view]
PIRSFiPIRSF036852. Ribonuclease_H1_euk. 1 hit.
SUPFAMiSSF53098. SSF53098. 1 hit.
SSF55658. SSF55658. 2 hits.
PROSITEiPS50879. RNASE_H. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q04740-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MARQGNFYAV RKGRETGIYN TWNECKNQVD GYGGAIYKKF NSYEQAKSFL
60 70 80 90 100
GQPNTTSNYG SSTHAGGQVS KPHTTQKRVH RRNRPLHYSS LTSSSACSSL
110 120 130 140 150
SSANTNTFYS VKSNVPNIES KIFNNWKDCQ AYVKHKRGIT FKKFEDQLAA
160 170 180 190 200
ENFISGMSAH DYKLMNISKE SFESKYKLSS NTMYNKSMNV YCDGSSFGNG
210 220 230 240 250
TSSSRAGYGA YFEGAPEENI SEPLLSGAQT NNRAEIEAVS EALKKIWEKL
260 270 280 290 300
TNEKEKVNYQ IKTDSEYVTK LLNDRYMTYD NKKLEGLPNS DLIVPLVQRF
310 320 330 340
VKVKKYYELN KECFKNNGKF QIEWVKGHDG DPGNEMADFL AKKGASRR
Length:348
Mass (Da):39,431
Last modified:February 1, 1996 - v2
Checksum:i02403B2329126B90
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z49939 Genomic DNA. Translation: CAA90205.1.
X57160 Genomic DNA. Translation: CAA40448.1.
BK006946 Genomic DNA. Translation: DAA10134.1.
PIRiS57601.
RefSeqiNP_013961.1. NM_001182741.1.

Genome annotation databases

EnsemblFungiiYMR234W; YMR234W; YMR234W.
GeneIDi855274.
KEGGisce:YMR234W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z49939 Genomic DNA. Translation: CAA90205.1.
X57160 Genomic DNA. Translation: CAA40448.1.
BK006946 Genomic DNA. Translation: DAA10134.1.
PIRiS57601.
RefSeqiNP_013961.1. NM_001182741.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1QHKNMR-A5-51[»]
ProteinModelPortaliQ04740.
SMRiQ04740. Positions 5-51, 186-345.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi35412. 48 interactions.
DIPiDIP-6787N.
IntActiQ04740. 5 interactions.
MINTiMINT-624702.

Proteomic databases

MaxQBiQ04740.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYMR234W; YMR234W; YMR234W.
GeneIDi855274.
KEGGisce:YMR234W.

Organism-specific databases

EuPathDBiFungiDB:YMR234W.
SGDiS000004847. RNH1.

Phylogenomic databases

GeneTreeiENSGT00390000003466.
HOGENOMiHOG000066052.
InParanoidiQ04740.
KOiK03469.
OMAiARPRYKK.
OrthoDBiEOG092C42S8.

Enzyme and pathway databases

BioCyciYEAST:G3O-32915-MONOMER.

Miscellaneous databases

EvolutionaryTraceiQ04740.
PROiQ04740.

Family and domain databases

Gene3Di3.30.420.10. 1 hit.
3.40.970.10. 2 hits.
InterProiIPR009027. Ribosomal_L9/RNase_H1_N.
IPR017067. RNase_H1_euk.
IPR011320. RNase_H1_N.
IPR012337. RNaseH-like_dom.
IPR002156. RNaseH_domain.
[Graphical view]
PfamiPF01693. Cauli_VI. 2 hits.
PF00075. RNase_H. 1 hit.
[Graphical view]
PIRSFiPIRSF036852. Ribonuclease_H1_euk. 1 hit.
SUPFAMiSSF53098. SSF53098. 1 hit.
SSF55658. SSF55658. 2 hits.
PROSITEiPS50879. RNASE_H. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRNH1_YEAST
AccessioniPrimary (citable) accession number: Q04740
Secondary accession number(s): D6W060
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1993
Last sequence update: February 1, 1996
Last modified: September 7, 2016
This is version 146 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 149 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome XIII
    Yeast (Saccharomyces cerevisiae) chromosome XIII: entries and gene names

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.