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Protein

Ribonuclease HII

Gene

rnhB

Organism
Escherichia coli (strain K12)
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.By similarity1 Publication

Catalytic activityi

Endonucleolytic cleavage to 5'-phosphomonoester.

Cofactori

Mn2+By similarity, Mg2+By similarityNote: Manganese or magnesium. Binds 1 divalent metal ion per monomer in the absence of substrate. May bind a second metal ion after substrate binding.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi16 – 161Divalent metal cationBy similarity
Metal bindingi17 – 171Divalent metal cationBy similarity
Metal bindingi108 – 1081Divalent metal cationBy similarity

GO - Molecular functioni

  • manganese ion binding Source: UniProtKB-HAMAP
  • RNA binding Source: InterPro
  • RNA-DNA hybrid ribonuclease activity Source: EcoCyc

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Endonuclease, Hydrolase, Nuclease

Keywords - Ligandi

Manganese, Metal-binding

Enzyme and pathway databases

BioCyciEcoCyc:EG10861-MONOMER.
ECOL316407:JW0178-MONOMER.
MetaCyc:EG10861-MONOMER.
BRENDAi3.1.26.4. 2026.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribonuclease HII (EC:3.1.26.4)
Short name:
RNase HII
Gene namesi
Name:rnhB
Ordered Locus Names:b0183, JW0178
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG10861. rnhB.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 198198Ribonuclease HIIPRO_0000111571Add
BLAST

Proteomic databases

PaxDbiP10442.

Interactioni

Protein-protein interaction databases

BioGridi4261585. 83 interactions.
IntActiP10442. 5 interactions.
STRINGi511145.b0183.

Structurei

3D structure databases

ProteinModelPortaliP10442.
SMRiP10442. Positions 11-190.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the RNase HII family.Curated

Phylogenomic databases

eggNOGiENOG4108UH2. Bacteria.
COG0164. LUCA.
HOGENOMiHOG000100288.
InParanoidiP10442.
KOiK03470.
OMAiLSWAYLD.
OrthoDBiEOG6BKJC8.
PhylomeDBiP10442.

Family and domain databases

Gene3Di3.30.420.10. 1 hit.
HAMAPiMF_00052_B. RNase_HII_B.
InterProiIPR022898. RNase_HII.
IPR001352. RNase_HII/HIII.
IPR024567. RNase_HII/HIII_dom.
IPR012337. RNaseH-like_dom.
[Graphical view]
PANTHERiPTHR10954. PTHR10954. 1 hit.
PfamiPF01351. RNase_HII. 1 hit.
[Graphical view]
SUPFAMiSSF53098. SSF53098. 1 hit.

Sequencei

Sequence statusi: Complete.

P10442-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIEFVYPHTQ LVAGVDEVGR GPLVGAVVTA AVILDPARPI AGLNDSKKLS
60 70 80 90 100
EKRRLALYEE IKEKALSWSL GRAEPHEIDE LNILHATMLA MQRAVAGLHI
110 120 130 140 150
APEYVLIDGN RCPKLPMPAM AVVKGDSRVP EISAASILAK VTRDAEMAAL
160 170 180 190
DIVFPQYGFA QHKGYPTAFH LEKLAEHGAT EHHRRSFGPV KRALGLAS
Length:198
Mass (Da):21,526
Last modified:November 1, 1997 - v2
Checksum:i25350722EB5D7864
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti196 – 1983LAS → TCVLILVSRLSKPESEDV (PubMed:3316192).Curated
Sequence conflicti196 – 1983LAS → TCVLILVSRLSKPESEDV (Ref. 2) Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M19334 Genomic DNA. No translation available.
U70214 Genomic DNA. Translation: AAB08612.1.
U00096 Genomic DNA. Translation: AAC73294.1.
AP009048 Genomic DNA. Translation: BAA77858.2.
PIRiG64742. QQECBE.
RefSeqiNP_414725.1. NC_000913.3.
WP_000569430.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC73294; AAC73294; b0183.
BAA77858; BAA77858; BAA77858.
GeneIDi944852.
KEGGiecj:JW0178.
eco:b0183.
PATRICi32115477. VBIEscCol129921_0190.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M19334 Genomic DNA. No translation available.
U70214 Genomic DNA. Translation: AAB08612.1.
U00096 Genomic DNA. Translation: AAC73294.1.
AP009048 Genomic DNA. Translation: BAA77858.2.
PIRiG64742. QQECBE.
RefSeqiNP_414725.1. NC_000913.3.
WP_000569430.1. NZ_LN832404.1.

3D structure databases

ProteinModelPortaliP10442.
SMRiP10442. Positions 11-190.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4261585. 83 interactions.
IntActiP10442. 5 interactions.
STRINGi511145.b0183.

Proteomic databases

PaxDbiP10442.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC73294; AAC73294; b0183.
BAA77858; BAA77858; BAA77858.
GeneIDi944852.
KEGGiecj:JW0178.
eco:b0183.
PATRICi32115477. VBIEscCol129921_0190.

Organism-specific databases

EchoBASEiEB0854.
EcoGeneiEG10861. rnhB.

Phylogenomic databases

eggNOGiENOG4108UH2. Bacteria.
COG0164. LUCA.
HOGENOMiHOG000100288.
InParanoidiP10442.
KOiK03470.
OMAiLSWAYLD.
OrthoDBiEOG6BKJC8.
PhylomeDBiP10442.

Enzyme and pathway databases

BioCyciEcoCyc:EG10861-MONOMER.
ECOL316407:JW0178-MONOMER.
MetaCyc:EG10861-MONOMER.
BRENDAi3.1.26.4. 2026.

Miscellaneous databases

PROiP10442.

Family and domain databases

Gene3Di3.30.420.10. 1 hit.
HAMAPiMF_00052_B. RNase_HII_B.
InterProiIPR022898. RNase_HII.
IPR001352. RNase_HII/HIII.
IPR024567. RNase_HII/HIII_dom.
IPR012337. RNaseH-like_dom.
[Graphical view]
PANTHERiPTHR10954. PTHR10954. 1 hit.
PfamiPF01351. RNase_HII. 1 hit.
[Graphical view]
SUPFAMiSSF53098. SSF53098. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Sequence analysis of the Escherichia coli dnaE gene."
    Tomasiewicz H.G., McHenry C.S.
    J. Bacteriol. 169:5735-5744(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "Systematic sequencing of the Escherichia coli genome: analysis of the 4.0 - 6.0 min (189,987 - 281,416bp) region."
    Takemoto K., Mori H., Murayama N., Kataoka K., Yano M., Itoh T., Yamamoto Y., Inokuchi H., Miki T., Hatada E., Fukuda R., Ichihara S., Mizuno T., Makino K., Nakata A., Yura T., Sampei G., Mizobuchi K.
    Submitted (FEB-1996) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  3. "Sequence of minutes 4-25 of Escherichia coli."
    Chung E., Allen E., Araujo R., Aparicio A.M., Davis K., Duncan M., Federspiel N., Hyman R., Kalman S., Komp C., Kurdi O., Lew H., Lin D., Namath A., Oefner P., Roberts D., Schramm S., Davis R.W.
    Submitted (JAN-1997) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  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], SEQUENCE REVISION TO 196-198.
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  6. "Isolation and characterization of a second RNase H (RNase HII) of Escherichia coli K-12 encoded by the rnhB gene."
    Itaya M.
    Proc. Natl. Acad. Sci. U.S.A. 87:8587-8591(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 1-11, FUNCTION.
    Strain: K12.
  7. "Identification of the genes encoding Mn2+-dependent RNase HII and Mg2+-dependent RNase HIII from Bacillus subtilis: classification of RNases H into three families."
    Ohtani N., Haruki M., Morikawa M., Crouch R.J., Itaya M., Kanaya S.
    Biochemistry 38:605-618(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: CHARACTERIZATION.

Entry informationi

Entry nameiRNH2_ECOLI
AccessioniPrimary (citable) accession number: P10442
Secondary accession number(s): P78265
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 1, 1989
Last sequence update: November 1, 1997
Last modified: April 13, 2016
This is version 128 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

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. 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.