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Protein

Ribonuclease H

Gene

rnhA

Organism
Desulfovibrio vulgaris (strain Miyazaki F / DSM 19637)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

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

Catalytic activityi

Endonucleolytic cleavage to 5'-phosphomonoester.UniRule annotation

Cofactori

Mg2+UniRule annotationNote: Binds 1 Mg2+ ion per subunit. May bind a second metal ion at a regulatory site, or after substrate binding.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi11 – 111Magnesium 1UniRule annotation
Metal bindingi11 – 111Magnesium 2UniRule annotation
Metal bindingi49 – 491Magnesium 1UniRule annotation
Metal bindingi71 – 711Magnesium 1UniRule annotation
Metal bindingi136 – 1361Magnesium 2UniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Endonuclease, Hydrolase, Nuclease

Keywords - Ligandi

Magnesium, Metal-binding

Enzyme and pathway databases

BioCyciDVUL883:GCJ5-2741-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribonuclease HUniRule annotation (EC:3.1.26.4UniRule annotation)
Short name:
RNase HUniRule annotation
Gene namesi
Name:rnhAUniRule annotation
Ordered Locus Names:DvMF_2669
OrganismiDesulfovibrio vulgaris (strain Miyazaki F / DSM 19637)
Taxonomic identifieri883 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfovibrionalesDesulfovibrionaceaeDesulfovibrio
Proteomesi
  • UP000001361 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 156156Ribonuclease HPRO_1000116576Add
BLAST

Interactioni

Subunit structurei

Monomer.UniRule annotation

Protein-protein interaction databases

STRINGi883.DvMF_2669.

Structurei

3D structure databases

ProteinModelPortaliB8DIU7.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini2 – 144143RNase HUniRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the RNase H family.UniRule annotation
Contains 1 RNase H domain.UniRule annotation

Phylogenomic databases

eggNOGiENOG4108UMW. Bacteria.
COG0328. LUCA.
HOGENOMiHOG000040465.
KOiK03469.
OMAiLVTDSQY.
OrthoDBiEOG696BTR.

Family and domain databases

Gene3Di3.30.420.10. 1 hit.
HAMAPiMF_00042. RNase_H.
InterProiIPR022892. RNaseH.
IPR012337. RNaseH-like_dom.
IPR002156. RNaseH_domain.
[Graphical view]
PfamiPF00075. RNase_H. 1 hit.
[Graphical view]
SUPFAMiSSF53098. SSF53098. 1 hit.
PROSITEiPS50879. RNASE_H. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

B8DIU7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTMKNVQAFT DGSCLGNPGP GGWAAVLRCN GSERELSGGF ALTTNNRMEI
60 70 80 90 100
LAVIEALALL KEPCGVDLYT DSQYVRNAVE KKWLAGWRRN GWKTSDKKPV
110 120 130 140 150
KNRDLWERLQ PLLDLHQVRF HWVRGHSGHP ENERCDVLAR TQASSRGLPP

DTGYRE
Length:156
Mass (Da):17,574
Last modified:March 3, 2009 - v1
Checksum:i0A69FD21CAA416E8
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001197 Genomic DNA. Translation: ACL09608.1.
RefSeqiWP_015946296.1. NC_011769.1.

Genome annotation databases

EnsemblBacteriaiACL09608; ACL09608; DvMF_2669.
KEGGidvm:DvMF_2669.
PATRICi21775798. VBIDesVul86729_2899.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001197 Genomic DNA. Translation: ACL09608.1.
RefSeqiWP_015946296.1. NC_011769.1.

3D structure databases

ProteinModelPortaliB8DIU7.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi883.DvMF_2669.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACL09608; ACL09608; DvMF_2669.
KEGGidvm:DvMF_2669.
PATRICi21775798. VBIDesVul86729_2899.

Phylogenomic databases

eggNOGiENOG4108UMW. Bacteria.
COG0328. LUCA.
HOGENOMiHOG000040465.
KOiK03469.
OMAiLVTDSQY.
OrthoDBiEOG696BTR.

Enzyme and pathway databases

BioCyciDVUL883:GCJ5-2741-MONOMER.

Family and domain databases

Gene3Di3.30.420.10. 1 hit.
HAMAPiMF_00042. RNase_H.
InterProiIPR022892. RNaseH.
IPR012337. RNaseH-like_dom.
IPR002156. RNaseH_domain.
[Graphical view]
PfamiPF00075. RNase_H. 1 hit.
[Graphical view]
SUPFAMiSSF53098. SSF53098. 1 hit.
PROSITEiPS50879. RNASE_H. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Complete sequence of Desulfovibrio vulgaris str. 'Miyazaki F'."
    Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Dalin E., Tice H., Bruce D., Goodwin L., Pitluck S., Sims D., Brettin T., Detter J.C., Han C., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N., Hazen T.C., Richardson P.
    Submitted (OCT-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Miyazaki F / DSM 19637.

Entry informationi

Entry nameiRNH_DESVM
AccessioniPrimary (citable) accession number: B8DIU7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: March 3, 2009
Last modified: November 11, 2015
This is version 38 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. 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.