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Protein

Ribosomal RNA large subunit methyltransferase H

Gene

rlmH

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

Functioni

Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA. Specific for fully assembled 70S ribosomes.4 Publications

Catalytic activityi

S-adenosyl-L-methionine + pseudouridine(1915) in 23S rRNA = S-adenosyl-L-homocysteine + N3-methylpseudouridine(1915) in 23S rRNA.UniRule annotation4 Publications

Kineticsi

kcat is 5-6 min(-1) (PubMed:20817755). kcat is 2.5 min(-1) (PubMed:28428565).2 Publications
  1. KM=0.51 µM for 70S ribosome1 Publication
  2. KM=0.3 µM for 70S ribosome1 Publication
  3. KM=27 µM for S-adenosyl-L-methionine1 Publication

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Binding sitei72S-adenosyl-L-methionine; via carbonyl oxygenUniRule annotationCombined sources1 Publication1
    Binding sitei103S-adenosyl-L-methionine; via amide nitrogenUniRule annotationCombined sources1 Publication1

    GO - Molecular functioni

    • protein homodimerization activity Source: UniProtKB
    • ribosome binding Source: UniProtKB
    • rRNA (pseudouridine-N3-)-methyltransferase activity Source: EcoCyc

    GO - Biological processi

    • rRNA base methylation Source: EcoCyc
    • rRNA methylation Source: UniProtKB

    Keywordsi

    Molecular functionMethyltransferase, Transferase
    Biological processrRNA processing
    LigandS-adenosyl-L-methionine

    Enzyme and pathway databases

    BioCyciEcoCyc:EG11254-MONOMER.
    MetaCyc:EG11254-MONOMER.
    BRENDAi2.1.1.177. 2026.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ribosomal RNA large subunit methyltransferase HUniRule annotationCurated (EC:2.1.1.177UniRule annotation4 Publications)
    Alternative name(s):
    23S rRNA (pseudouridine1915-N3)-methyltransferaseUniRule annotationCurated
    23S rRNA m3Psi1915 methyltransferaseUniRule annotationCurated
    rRNA (pseudouridine-N3-)-methyltransferase RlmHUniRule annotationCurated
    Gene namesi
    Name:rlmH2 PublicationsUniRule annotation
    Synonyms:ybeA
    Ordered Locus Names:b0636, JW0631
    OrganismiEscherichia coli (strain K12)
    Taxonomic identifieri83333 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
    Proteomesi
    • UP000000318 Componenti: Chromosome
    • UP000000625 Componenti: Chromosome

    Organism-specific databases

    EcoGeneiEG11254. rlmH.

    Subcellular locationi

    • Cytoplasm UniRule annotationCurated

    GO - Cellular componenti

    • cytoplasm Source: UniProtKB

    Keywords - Cellular componenti

    Cytoplasm

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Mutagenesisi129H → A: Decrease in activity. 1 Publication1
    Mutagenesisi138E → A or Q: Loss of activity. 1 Publication1
    Mutagenesisi142R → A: Decrease in activity. 1 Publication1
    Mutagenesisi152Y → F: Loss of activity. 1 Publication1
    Mutagenesisi153H → F: Loss of activity. 1 Publication1
    Mutagenesisi154R → A: Loss of activity. Impairs ribosome binding. 1 Publication1

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    ChainiPRO_00001981151 – 155Ribosomal RNA large subunit methyltransferase HAdd BLAST155

    Proteomic databases

    PaxDbiP0A8I8.
    PRIDEiP0A8I8.

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotation2 Publications

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    rpsBP0A7V02EBI-560148,EBI-543439

    GO - Molecular functioni

    • protein homodimerization activity Source: UniProtKB

    Protein-protein interaction databases

    BioGridi4259479. 34 interactors.
    DIPiDIP-11357N.
    IntActiP0A8I8. 11 interactors.
    MINTiMINT-1251153.
    STRINGi316385.ECDH10B_0705.

    Structurei

    Secondary structure

    1155
    Legend: HelixTurnBeta strandPDB Structure known for this area
    Show more details
    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Beta strandi3 – 8Combined sources6
    Helixi14 – 24Combined sources11
    Beta strandi33 – 38Combined sources6
    Beta strandi45 – 47Combined sources3
    Helixi49 – 64Combined sources16
    Beta strandi67 – 72Combined sources6
    Helixi81 – 94Combined sources14
    Beta strandi98 – 102Combined sources5
    Helixi110 – 115Combined sources6
    Beta strandi117 – 120Combined sources4
    Helixi129 – 147Combined sources19
    Helixi151 – 153Combined sources3

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    1NS5X-ray1.68A/B1-155[»]
    5TWJX-ray2.30A/B/C/D2-155[»]
    5TWKX-ray2.10A/B/C/D2-155[»]
    ProteinModelPortaliP0A8I8.
    SMRiP0A8I8.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP0A8I8.

    Family & Domainsi

    Region

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Regioni122 – 127S-adenosyl-L-methionine bindingUniRule annotationCombined sources1 Publication6

    Sequence similaritiesi

    Belongs to the RNA methyltransferase RlmH family.UniRule annotationCurated

    Phylogenomic databases

    eggNOGiENOG4108UXA. Bacteria.
    COG1576. LUCA.
    HOGENOMiHOG000218434.
    InParanoidiP0A8I8.
    KOiK00783.
    PhylomeDBiP0A8I8.

    Family and domain databases

    Gene3Di3.40.1280.10. 1 hit.
    HAMAPiMF_00658. 23SrRNA_methyltr_H. 1 hit.
    InterProiView protein in InterPro
    IPR029028. Alpha/beta_knot_MTases.
    IPR003742. RlmH-like.
    IPR029026. tRNA_m1G_MTases_N.
    PANTHERiPTHR33603. PTHR33603. 1 hit.
    PfamiView protein in Pfam
    PF02590. SPOUT_MTase. 1 hit.
    PIRSFiPIRSF004505. MT_bac. 1 hit.
    SUPFAMiSSF75217. SSF75217. 1 hit.
    TIGRFAMsiTIGR00246. tRNA_RlmH_YbeA. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    P0A8I8-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MKLQLVAVGT KMPDWVQTGF TEYLRRFPKD MPFELIEIPA GKRGKNADIK
    60 70 80 90 100
    RILDKEGEQM LAAAGKNRIV TLDIPGKPWD TPQLAAELER WKLDGRDVSL
    110 120 130 140 150
    LIGGPEGLSP ACKAAAEQSW SLSALTLPHP LVRVLVAESL YRAWSITTNH

    PYHRE
    Length:155
    Mass (Da):17,341
    Last modified:June 7, 2005 - v1
    Checksum:iDFA0EFCF4EB057E7
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    X04516 Genomic DNA. Translation: CAA28200.1.
    U82598 Genomic DNA. Translation: AAB40836.1.
    U00096 Genomic DNA. Translation: AAC73737.1.
    AP009048 Genomic DNA. Translation: BAA35283.1.
    PIRiB24995. QQECP1.
    RefSeqiNP_415169.1. NC_000913.3.
    WP_000776104.1. NZ_LN832404.1.

    Genome annotation databases

    EnsemblBacteriaiAAC73737; AAC73737; b0636.
    BAA35283; BAA35283; BAA35283.
    GeneIDi945239.
    KEGGiecj:JW0631.
    eco:b0636.
    PATRICifig|1411691.4.peg.1632.

    Similar proteinsi

    Entry informationi

    Entry nameiRLMH_ECOLI
    AccessioniPrimary (citable) accession number: P0A8I8
    Secondary accession number(s): P05850
    Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 7, 2005
    Last sequence update: June 7, 2005
    Last modified: November 22, 2017
    This is version 107 of the entry and version 1 of the sequence. See 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