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Protein

Ribosomal RNA small subunit methyltransferase E

Gene

rsmE

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Specifically methylates the N3 position of the uracil ring of uridine 1498 (m3U1498) in 16S rRNA. Acts on the fully assembled 30S ribosomal subunit.2 Publications

Catalytic activityi

S-adenosyl-L-methionine + uracil(1498) in 16S rRNA = S-adenosyl-L-homocysteine + N(3)-methyluracil(1498) in 16S rRNA.1 Publication

Kineticsi

  1. KM=2.0 µM for 16S rRNA within 30S ribosomal subunits1 Publication
  2. KM=26.7 µM for S-adenosyl-L-methionine1 Publication

    pH dependencei

    Optimum pH is 7-9.1 Publication

    GO - Molecular functioni

    • rRNA (uridine-N3-)-methyltransferase activity Source: EcoCyc

    GO - Biological processi

    • rRNA base methylation Source: EcoCyc
    Complete GO annotation...

    Keywords - Molecular functioni

    Methyltransferase, Transferase

    Keywords - Biological processi

    rRNA processing

    Keywords - Ligandi

    S-adenosyl-L-methionine

    Enzyme and pathway databases

    BioCyciEcoCyc:EG12366-MONOMER.
    ECOL316407:JW2913-MONOMER.
    MetaCyc:EG12366-MONOMER.
    BRENDAi2.1.1.193. 2026.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ribosomal RNA small subunit methyltransferase E (EC:2.1.1.193)
    Alternative name(s):
    16S rRNA m3U1498 methyltransferase
    Gene namesi
    Name:rsmE
    Synonyms:yggJ
    Ordered Locus Names:b2946, JW2913
    OrganismiEscherichia coli (strain K12)
    Taxonomic identifieri83333 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
    Proteomesi
    • UP000000318 Componenti: Chromosome
    • UP000000625 Componenti: Chromosome

    Organism-specific databases

    EcoGeneiEG12366. rsmE.

    Subcellular locationi

    GO - Cellular componenti

    Complete GO annotation...

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 243243Ribosomal RNA small subunit methyltransferase EPRO_0000176199Add
    BLAST

    Proteomic databases

    EPDiP0AGL7.
    PaxDbiP0AGL7.
    PRIDEiP0AGL7.

    Interactioni

    Subunit structurei

    Homodimer.1 Publication

    Protein-protein interaction databases

    BioGridi4259407. 7 interactions.
    IntActiP0AGL7. 5 interactions.
    STRINGi511145.b2946.

    Structurei

    Secondary structure

    1
    243
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi5 – 73Combined sources
    Beta strandi17 – 193Combined sources
    Helixi22 – 298Combined sources
    Beta strandi39 – 435Combined sources
    Beta strandi45 – 5713Combined sources
    Beta strandi62 – 7110Combined sources
    Beta strandi77 – 859Combined sources
    Beta strandi88 – 903Combined sources
    Helixi91 – 10111Combined sources
    Beta strandi106 – 1116Combined sources
    Helixi121 – 14222Combined sources
    Helixi156 – 1616Combined sources
    Beta strandi165 – 1717Combined sources
    Beta strandi176 – 1783Combined sources
    Helixi179 – 1813Combined sources
    Beta strandi188 – 1936Combined sources
    Helixi201 – 2099Combined sources
    Beta strandi213 – 2164Combined sources
    Helixi224 – 23815Combined sources

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    4E8BX-ray2.25A1-243[»]
    ProteinModelPortaliP0AGL7.
    SMRiP0AGL7. Positions 3-243.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the RNA methyltransferase RsmE family.Curated

    Phylogenomic databases

    eggNOGiENOG4105QF0. Bacteria.
    COG1385. LUCA.
    HOGENOMiHOG000015265.
    InParanoidiP0AGL7.
    KOiK09761.
    OMAiERMEFTI.
    OrthoDBiEOG6FJNHQ.
    PhylomeDBiP0AGL7.

    Family and domain databases

    Gene3Di3.40.1280.10. 1 hit.
    InterProiIPR029028. Alpha/beta_knot_MTases.
    IPR015947. PUA-like_domain.
    IPR006700. rRNA_ssu_MeTrfase-E.
    IPR029026. tRNA_m1G_MTases_N.
    [Graphical view]
    PfamiPF04452. Methyltrans_RNA. 1 hit.
    [Graphical view]
    PIRSFiPIRSF015601. MTase_slr0722. 1 hit.
    SUPFAMiSSF75217. SSF75217. 1 hit.
    SSF88697. SSF88697. 1 hit.
    TIGRFAMsiTIGR00046. TIGR00046. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    P0AGL7-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MRIPRIYHPE PLTSHSHIAL CEDAANHIGR VLRMGPGQAL QLFDGSNQVF
    60 70 80 90 100
    DAEITSASKK SVEVKVLEGQ IDDRESPLHI HLGQVMSRGE KMEFTIQKSI
    110 120 130 140 150
    ELGVSLITPL FSERCGVKLD SERLNKKLQQ WQKIAIAACE QCGRNRVPEI
    160 170 180 190 200
    RPAMDLEAWC AEQDEGLKLN LHPRASNSIN TLPLPVERVR LLIGPEGGLS
    210 220 230 240
    ADEIAMTARY QFTDILLGPR VLRTETTALT AITALQVRFG DLG
    Length:243
    Mass (Da):26,978
    Last modified:December 20, 2005 - v1
    Checksum:i5C4659F5B295E033
    GO

    Sequence cautioni

    The sequence AAA69113.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    U28377 Genomic DNA. Translation: AAA69113.1. Different initiation.
    U00096 Genomic DNA. Translation: AAC75983.2.
    AP009048 Genomic DNA. Translation: BAE77009.1.
    X65169 Genomic DNA. No translation available.
    X01666 Genomic DNA. No translation available.
    RefSeqiNP_417421.4. NC_000913.3.
    WP_001222509.1. NZ_LN832404.1.

    Genome annotation databases

    EnsemblBacteriaiAAC75983; AAC75983; b2946.
    BAE77009; BAE77009; BAE77009.
    GeneIDi945816.
    KEGGiecj:JW2913.
    eco:b2946.
    PATRICi32121302. VBIEscCol129921_3039.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    U28377 Genomic DNA. Translation: AAA69113.1. Different initiation.
    U00096 Genomic DNA. Translation: AAC75983.2.
    AP009048 Genomic DNA. Translation: BAE77009.1.
    X65169 Genomic DNA. No translation available.
    X01666 Genomic DNA. No translation available.
    RefSeqiNP_417421.4. NC_000913.3.
    WP_001222509.1. NZ_LN832404.1.

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    4E8BX-ray2.25A1-243[»]
    ProteinModelPortaliP0AGL7.
    SMRiP0AGL7. Positions 3-243.
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    BioGridi4259407. 7 interactions.
    IntActiP0AGL7. 5 interactions.
    STRINGi511145.b2946.

    Proteomic databases

    EPDiP0AGL7.
    PaxDbiP0AGL7.
    PRIDEiP0AGL7.

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsemblBacteriaiAAC75983; AAC75983; b2946.
    BAE77009; BAE77009; BAE77009.
    GeneIDi945816.
    KEGGiecj:JW2913.
    eco:b2946.
    PATRICi32121302. VBIEscCol129921_3039.

    Organism-specific databases

    EchoBASEiEB2269.
    EcoGeneiEG12366. rsmE.

    Phylogenomic databases

    eggNOGiENOG4105QF0. Bacteria.
    COG1385. LUCA.
    HOGENOMiHOG000015265.
    InParanoidiP0AGL7.
    KOiK09761.
    OMAiERMEFTI.
    OrthoDBiEOG6FJNHQ.
    PhylomeDBiP0AGL7.

    Enzyme and pathway databases

    BioCyciEcoCyc:EG12366-MONOMER.
    ECOL316407:JW2913-MONOMER.
    MetaCyc:EG12366-MONOMER.
    BRENDAi2.1.1.193. 2026.

    Miscellaneous databases

    PROiP0AGL7.

    Family and domain databases

    Gene3Di3.40.1280.10. 1 hit.
    InterProiIPR029028. Alpha/beta_knot_MTases.
    IPR015947. PUA-like_domain.
    IPR006700. rRNA_ssu_MeTrfase-E.
    IPR029026. tRNA_m1G_MTases_N.
    [Graphical view]
    PfamiPF04452. Methyltrans_RNA. 1 hit.
    [Graphical view]
    PIRSFiPIRSF015601. MTase_slr0722. 1 hit.
    SUPFAMiSSF75217. SSF75217. 1 hit.
    SSF88697. SSF88697. 1 hit.
    TIGRFAMsiTIGR00046. TIGR00046. 1 hit.
    ProtoNetiSearch...

    Publicationsi

    « Hide 'large scale' publications
    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: K12 / MG1655 / ATCC 47076.
    2. "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.
    3. "Location of the endA gene coding for endonuclease I on the physical map of the Escherichia coli K-12 chromosome."
      Jekel M., Wackernagel W.
      J. Bacteriol. 176:1550-1551(1994) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-128.
      Strain: K12.
    4. "Complete nucleotide sequence of the E. coli glutathione synthetase gsh-II."
      Gushima H., Yasuda S., Soeda E., Yokota M., Kondo M., Kimura A.
      Nucleic Acids Res. 12:9299-9307(1984) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 127-243.
      Strain: B.
    5. Rudd K.E., Baum B.
      Unpublished observations (AUG-1994)
      Cited for: IDENTIFICATION.
    6. "Identification and characterization of RsmE, the founding member of a new RNA base methyltransferase family."
      Basturea G.N., Rudd K.E., Deutscher M.P.
      RNA 12:426-434(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION AS METHYLTRANSFERASE, CATALYTIC ACTIVITY.
      Strain: K12 / MG1655 / ATCC 47076.
    7. "Substrate specificity and properties of the Escherichia coli 16S rRNA methyltransferase, RsmE."
      Basturea G.N., Deutscher M.P.
      RNA 13:1969-1976(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, SUBUNIT, BIOPHYSICOCHEMICAL PROPERTIES.

    Entry informationi

    Entry nameiRSME_ECOLI
    AccessioniPrimary (citable) accession number: P0AGL7
    Secondary accession number(s): P37912, P76647, Q2M9P7
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 20, 2005
    Last sequence update: December 20, 2005
    Last modified: March 16, 2016
    This is version 80 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. 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
    4. Uncharacterized protein families (UPF)
      List of uncharacterized protein family (UPF) entries

    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.