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Q9KEI9

- RNH1_BACHD

UniProt

Q9KEI9 - RNH1_BACHD

Protein

Ribonuclease H

Gene

rnhA

Organism
Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 87 (01 Oct 2014)
      Sequence version 1 (01 Oct 2000)
      Previous versions | rss
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    Functioni

    Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.1 Publication

    Catalytic activityi

    Endonucleolytic cleavage to 5'-phosphomonoester.

    Cofactori

    Binds 2 metal ions per subunit. Manganese or magnesium.

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi71 – 711Magnesium 11 Publication
    Metal bindingi71 – 711Magnesium 21 Publication
    Metal bindingi109 – 1091Magnesium 21 Publication
    Metal bindingi132 – 1321Magnesium 21 Publication
    Metal bindingi192 – 1921Magnesium 11 Publication

    GO - Molecular functioni

    1. metal ion binding Source: UniProtKB-KW
    2. nucleic acid binding Source: InterPro
    3. RNA-DNA hybrid ribonuclease activity Source: UniProtKB-EC

    Keywords - Molecular functioni

    Endonuclease, Hydrolase, Nuclease

    Keywords - Ligandi

    Magnesium, Manganese, Metal-binding

    Enzyme and pathway databases

    BioCyciBHAL272558:GJC5-921-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ribonuclease H (EC:3.1.26.4)
    Short name:
    RNase H
    Gene namesi
    Name:rnhA
    Ordered Locus Names:BH0863
    OrganismiBacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125)
    Taxonomic identifieri272558 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
    ProteomesiUP000001258: Chromosome

    Subcellular locationi

    Cytoplasm Curated

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cytoplasm

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi109 – 1091E → Q: Loss of activity. 1 Publication
    Mutagenesisi132 – 1321D → N: Loss of activity. 1 Publication
    Mutagenesisi188 – 1881E → A: Strongly reduces activity. 1 Publication
    Mutagenesisi188 – 1881E → Q: No effect. 1 Publication
    Mutagenesisi192 – 1921D → N: Strongly reduced activity with manganese. Loss of activity with magnesium. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 196196Ribonuclease HPRO_0000195430Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi272558.BH0863.

    Structurei

    Secondary structure

    1
    196
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi65 – 7511
    Turni76 – 783
    Beta strandi79 – 879
    Turni88 – 903
    Beta strandi93 – 10311
    Helixi105 – 12218
    Beta strandi129 – 1324
    Helixi134 – 1429
    Turni153 – 1553
    Helixi156 – 17116
    Beta strandi178 – 1803
    Helixi183 – 1864

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1ZBFX-ray1.50A59-196[»]
    1ZBIX-ray1.85A/B59-196[»]
    1ZBLX-ray2.20A/B59-191[»]
    2G8FX-ray1.65A59-196[»]
    2G8HX-ray1.85A59-196[»]
    2G8IX-ray1.65A59-196[»]
    2G8KX-ray1.65A59-196[»]
    2G8UX-ray2.70A59-196[»]
    2G8VX-ray1.85A59-196[»]
    2G8WX-ray2.05A59-196[»]
    2R7YX-ray1.80A62-193[»]
    3D0PX-ray1.80A/C61-194[»]
    3EY1X-ray1.60A59-196[»]
    3I8DX-ray1.61A/C62-193[»]
    3TWHX-ray1.79A59-196[»]
    3ULDX-ray1.60A59-196[»]
    4HTUX-ray1.49A/B61-194[»]
    4HUEX-ray1.56A/B61-194[»]
    4HUFX-ray1.69A/B61-194[»]
    4HUGX-ray1.64A/B61-194[»]
    ProteinModelPortaliQ9KEI9.
    SMRiQ9KEI9. Positions 61-196.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ9KEI9.

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini88 – 196109RNase HAdd
    BLAST

    Sequence similaritiesi

    Belongs to the RNase H family.Curated
    Contains 1 RNase H domain.Curated

    Phylogenomic databases

    eggNOGiCOG3341.
    HOGENOMiHOG000251719.
    KOiK03469.
    OMAiGPMEYRG.
    OrthoDBiEOG6358C1.

    Family and domain databases

    Gene3Di3.30.420.10. 1 hit.
    3.40.970.10. 1 hit.
    InterProiIPR009027. Ribosomal_L9/RNase_H1_N.
    IPR011320. RNase_H1_N.
    IPR017290. RNase_H_bac.
    IPR012337. RNaseH-like_dom.
    IPR002156. RNaseH_domain.
    [Graphical view]
    PfamiPF01693. Cauli_VI. 1 hit.
    PF00075. RNase_H. 1 hit.
    [Graphical view]
    PIRSFiPIRSF037839. Ribonuclease_H. 1 hit.
    SUPFAMiSSF53098. SSF53098. 1 hit.
    SSF55658. SSF55658. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Q9KEI9-1 [UniParc]FASTAAdd to Basket

    « Hide

    MAKSKYYVVW NGRKPGIYTS WSACEAQVKG YTGAKFKSYP SKEEAEAAFR    50
    GEEATPKLAK EEIIWESLSV DVGSQGNPGI VEYKGVDTKT GEVLFEREPI 100
    PIGTNNMGEF LAIVHGLRYL KERNSRKPIY SDSQTAIKWV KDKKAKSTLV 150
    RNEETALIWK LVDEAEEWLN THTYETPILK WQTDKWGEIK ADYGRK 196
    Length:196
    Mass (Da):22,373
    Last modified:October 1, 2000 - v1
    Checksum:i4130558FA37D2A86
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000004 Genomic DNA. Translation: BAB04582.1.
    PIRiG83757.
    RefSeqiNP_241729.1. NC_002570.2.

    Genome annotation databases

    EnsemblBacteriaiBAB04582; BAB04582; BAB04582.
    GeneIDi893801.
    KEGGibha:BH0863.
    PATRICi18938738. VBIBacHal18977_0907.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000004 Genomic DNA. Translation: BAB04582.1 .
    PIRi G83757.
    RefSeqi NP_241729.1. NC_002570.2.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1ZBF X-ray 1.50 A 59-196 [» ]
    1ZBI X-ray 1.85 A/B 59-196 [» ]
    1ZBL X-ray 2.20 A/B 59-191 [» ]
    2G8F X-ray 1.65 A 59-196 [» ]
    2G8H X-ray 1.85 A 59-196 [» ]
    2G8I X-ray 1.65 A 59-196 [» ]
    2G8K X-ray 1.65 A 59-196 [» ]
    2G8U X-ray 2.70 A 59-196 [» ]
    2G8V X-ray 1.85 A 59-196 [» ]
    2G8W X-ray 2.05 A 59-196 [» ]
    2R7Y X-ray 1.80 A 62-193 [» ]
    3D0P X-ray 1.80 A/C 61-194 [» ]
    3EY1 X-ray 1.60 A 59-196 [» ]
    3I8D X-ray 1.61 A/C 62-193 [» ]
    3TWH X-ray 1.79 A 59-196 [» ]
    3ULD X-ray 1.60 A 59-196 [» ]
    4HTU X-ray 1.49 A/B 61-194 [» ]
    4HUE X-ray 1.56 A/B 61-194 [» ]
    4HUF X-ray 1.69 A/B 61-194 [» ]
    4HUG X-ray 1.64 A/B 61-194 [» ]
    ProteinModelPortali Q9KEI9.
    SMRi Q9KEI9. Positions 61-196.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 272558.BH0863.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAB04582 ; BAB04582 ; BAB04582 .
    GeneIDi 893801.
    KEGGi bha:BH0863.
    PATRICi 18938738. VBIBacHal18977_0907.

    Phylogenomic databases

    eggNOGi COG3341.
    HOGENOMi HOG000251719.
    KOi K03469.
    OMAi GPMEYRG.
    OrthoDBi EOG6358C1.

    Enzyme and pathway databases

    BioCyci BHAL272558:GJC5-921-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei Q9KEI9.

    Family and domain databases

    Gene3Di 3.30.420.10. 1 hit.
    3.40.970.10. 1 hit.
    InterProi IPR009027. Ribosomal_L9/RNase_H1_N.
    IPR011320. RNase_H1_N.
    IPR017290. RNase_H_bac.
    IPR012337. RNaseH-like_dom.
    IPR002156. RNaseH_domain.
    [Graphical view ]
    Pfami PF01693. Cauli_VI. 1 hit.
    PF00075. RNase_H. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF037839. Ribonuclease_H. 1 hit.
    SUPFAMi SSF53098. SSF53098. 1 hit.
    SSF55658. SSF55658. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Complete genome sequence of the alkaliphilic bacterium Bacillus halodurans and genomic sequence comparison with Bacillus subtilis."
      Takami H., Nakasone K., Takaki Y., Maeno G., Sasaki R., Masui N., Fuji F., Hirama C., Nakamura Y., Ogasawara N., Kuhara S., Horikoshi K.
      Nucleic Acids Res. 28:4317-4331(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125.
    2. "Crystal structures of RNase H bound to an RNA/DNA hybrid: substrate specificity and metal-dependent catalysis."
      Nowotny M., Gaidamakov S.A., Crouch R.J., Yang W.
      Cell 121:1005-1016(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.5 ANGSTROMS) OF 59-196 OF MUTANT ASN-132 IN COMPLEX WITH MAGNESIUM AND SUBSTRATE, FUNCTION, MUTAGENESIS OF GLU-109; ASP-132; GLU-188 AND ASP-192.

    Entry informationi

    Entry nameiRNH1_BACHD
    AccessioniPrimary (citable) accession number: Q9KEI9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 7, 2006
    Last sequence update: October 1, 2000
    Last modified: October 1, 2014
    This is version 87 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

    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

    External Data

    Dasty 3