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Protein

Ribosomal RNA large subunit methyltransferase E

Gene

rlmE

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

Functioni

Specifically methylates the uridine in position 2552 of 23S rRNA at the 2'-O position of the ribose in the fully assembled 50S ribosomal subunit.1 Publication

Catalytic activityi

S-adenosyl-L-methionine + uridine(2552) in 23S rRNA = S-adenosyl-L-homocysteine + 2'-O-methyluridine(2552) in 23S rRNA.1 Publication

Cofactori

Mg2+1 Publication

Kineticsi

  1. KM=0.8 µM for 23S rRNA within 50S ribosomal subunits1 Publication
  2. KM=3.7 µM for S-adenosyl-L-methionine1 Publication

    Temperature dependencei

    Optimum temperature is 55 degrees Celsius.1 Publication

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei63 – 631S-adenosyl-L-methionine; via amide nitrogen1 Publication
    Binding sitei65 – 651S-adenosyl-L-methionine; via amide nitrogen1 Publication
    Binding sitei83 – 831S-adenosyl-L-methionine1 Publication
    Binding sitei99 – 991S-adenosyl-L-methionine1 Publication
    Binding sitei124 – 1241S-adenosyl-L-methionine1 Publication
    Active sitei164 – 1641Proton acceptor1 Publication

    GO - Molecular functioni

    • rRNA (uridine-2'-O-)-methyltransferase activity Source: EcoCyc

    GO - Biological processi

    • enzyme-directed rRNA 2'-O-methylation Source: EcoCyc
    • ribosomal large subunit assembly Source: EcoCyc
    Complete GO annotation...

    Keywords - Molecular functioni

    Methyltransferase, Transferase

    Keywords - Biological processi

    rRNA processing, Stress response

    Keywords - Ligandi

    S-adenosyl-L-methionine

    Enzyme and pathway databases

    BioCyciEcoCyc:EG11507-MONOMER.
    ECOL316407:JW3146-MONOMER.
    MetaCyc:EG11507-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ribosomal RNA large subunit methyltransferase E (EC:2.1.1.166)
    Alternative name(s):
    23S rRNA Um2552 methyltransferase
    Cell division protein FtsJ
    rRNA (uridine-2'-O-)-methyltransferase
    Gene namesi
    Name:rlmE
    Synonyms:ftsJ, mrsF, rrmJ
    Ordered Locus Names:b3179, JW3146
    OrganismiEscherichia coli (strain K12)
    Taxonomic identifieri83333 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
    Proteomesi
    • UP000000318 Componenti: Chromosome
    • UP000000625 Componenti: Chromosome

    Organism-specific databases

    EcoGeneiEG11507. rlmE.

    Subcellular locationi

    GO - Cellular componenti

    • cytosol Source: EcoCyc
    Complete GO annotation...

    Keywords - Cellular componenti

    Cytoplasm

    Pathology & Biotechi

    Disruption phenotypei

    Cells lacking this gene show a dramatically altered ribosome profile, a severe growth disadvantage, and a temperature-sensitive phenotype. These effects are overcome by overexpressing either of 2 small GTPases, ObgE/CgtA or EngA.2 Publications

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi20 – 201D → A: 2-fold decrease in activity. Increase in Km for 50S subunit. 1 Publication
    Mutagenesisi22 – 221Y → A: No change in activity. 1 Publication
    Mutagenesisi32 – 321R → A: 4-fold decrease in activity and increase in Km for 50S subunit; when associated with A-34. 1 Publication
    Mutagenesisi34 – 341R → A: 4-fold decrease in activity and increase in Km for 50S subunit; when associated with A-32. 1 Publication
    Mutagenesisi38 – 381K → A: Loss of activity. Almost no change in S-adenosyl-L-methionine binding. 1 Publication
    Mutagenesisi83 – 831D → A: 5-fold decrease in activity. Increase in Km for 50S subunit and for S-adenosyl-L-methionine. Loss of S-adenosyl-L-methionine binding. 1 Publication
    Mutagenesisi124 – 1241D → A: Loss of activity. Loss of S-adenosyl-L-methionine binding. 1 Publication
    Mutagenesisi136 – 1361D → N: 2-fold decrease in activity. 1 Publication
    Mutagenesisi164 – 1641K → A: Loss of activity. No change in S-adenosyl-L-methionine binding. 1 Publication
    Mutagenesisi189 – 1891K → A: 9-fold decrease in activity. 1 Publication
    Mutagenesisi194 – 1941R → A: No change in activity. Increase in Km for 50S subunit. 1 Publication
    Mutagenesisi197 – 1971S → A: No change in activity. Increase in Km for 50S subunit. 1 Publication
    Mutagenesisi199 – 1991E → A: 16-fold decrease in activity. No change in S-adenosyl-L-methionine binding. 1 Publication
    Mutagenesisi201 – 2011Y → A: 5-fold decrease in activity. Almost no change in S-adenosyl-L-methionine binding. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 209209Ribosomal RNA large subunit methyltransferase EPRO_0000155497Add
    BLAST

    Proteomic databases

    PaxDbiP0C0R7.
    PRIDEiP0C0R7.

    Expressioni

    Inductioni

    By heat shock.

    Interactioni

    Protein-protein interaction databases

    BioGridi4262423. 219 interactions.
    DIPiDIP-47902N.
    IntActiP0C0R7. 21 interactions.
    MINTiMINT-1257637.
    STRINGi511145.b3179.

    Structurei

    Secondary structure

    1
    209
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi34 – 4613Combined sources
    Beta strandi54 – 596Combined sources
    Helixi64 – 7310Combined sources
    Beta strandi78 – 858Combined sources
    Beta strandi93 – 986Combined sources
    Helixi103 – 11311Combined sources
    Beta strandi118 – 1236Combined sources
    Helixi133 – 15422Combined sources
    Beta strandi155 – 16814Combined sources
    Helixi171 – 18111Combined sources
    Beta strandi182 – 1887Combined sources
    Beta strandi199 – 2079Combined sources

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1EIZX-ray1.70A30-209[»]
    1EJ0X-ray1.50A30-209[»]
    ProteinModelPortaliP0C0R7.
    SMRiP0C0R7. Positions 30-209.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP0C0R7.

    Family & Domainsi

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiENOG4105F7M. Bacteria.
    COG0293. LUCA.
    HOGENOMiHOG000162367.
    InParanoidiP0C0R7.
    KOiK02427.
    OMAiIDIPRAM.
    PhylomeDBiP0C0R7.

    Family and domain databases

    Gene3Di3.40.50.150. 1 hit.
    HAMAPiMF_01547. RNA_methyltr_E. 1 hit.
    InterProiIPR015507. rRNA-MeTfrase_E.
    IPR002877. rRNA_MeTrfase_FtsJ_dom.
    IPR004512. rRNA_MeTrfase_gammaproteobac.
    IPR029063. SAM-dependent_MTases.
    [Graphical view]
    PANTHERiPTHR10920. PTHR10920. 1 hit.
    PfamiPF01728. FtsJ. 1 hit.
    [Graphical view]
    PIRSFiPIRSF005461. 23S_rRNA_mtase. 1 hit.
    SUPFAMiSSF53335. SSF53335. 1 hit.
    TIGRFAMsiTIGR00438. rrmJ. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    P0C0R7-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MTGKKRSASS SRWLQEHFSD KYVQQAQKKG LRSRAWFKLD EIQQSDKLFK
    60 70 80 90 100
    PGMTVVDLGA APGGWSQYVV TQIGGKGRII ACDLLPMDPI VGVDFLQGDF
    110 120 130 140 150
    RDELVMKALL ERVGDSKVQV VMSDMAPNMS GTPAVDIPRA MYLVELALEM
    160 170 180 190 200
    CRDVLAPGGS FVVKVFQGEG FDEYLREIRS LFTKVKVRKP DSSRARSREV

    YIVATGRKP
    Length:209
    Mass (Da):23,335
    Last modified:December 6, 2005 - v1
    Checksum:iB83C3A7DFA8AC78F
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    M83138 Genomic DNA. Translation: AAA23812.1.
    U01376 Genomic DNA. Translation: AAA97507.1.
    U18997 Genomic DNA. Translation: AAA57980.1.
    U00096 Genomic DNA. Translation: AAC76211.1.
    AP009048 Genomic DNA. Translation: BAE77223.1.
    PIRiS35108.
    RefSeqiNP_417646.1. NC_000913.3.
    WP_000145975.1. NZ_LN832404.1.

    Genome annotation databases

    EnsemblBacteriaiAAC76211; AAC76211; b3179.
    BAE77223; BAE77223; BAE77223.
    GeneIDi947689.
    KEGGiecj:JW3146.
    eco:b3179.
    PATRICi32121776. VBIEscCol129921_3272.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    M83138 Genomic DNA. Translation: AAA23812.1.
    U01376 Genomic DNA. Translation: AAA97507.1.
    U18997 Genomic DNA. Translation: AAA57980.1.
    U00096 Genomic DNA. Translation: AAC76211.1.
    AP009048 Genomic DNA. Translation: BAE77223.1.
    PIRiS35108.
    RefSeqiNP_417646.1. NC_000913.3.
    WP_000145975.1. NZ_LN832404.1.

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1EIZX-ray1.70A30-209[»]
    1EJ0X-ray1.50A30-209[»]
    ProteinModelPortaliP0C0R7.
    SMRiP0C0R7. Positions 30-209.
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    BioGridi4262423. 219 interactions.
    DIPiDIP-47902N.
    IntActiP0C0R7. 21 interactions.
    MINTiMINT-1257637.
    STRINGi511145.b3179.

    Proteomic databases

    PaxDbiP0C0R7.
    PRIDEiP0C0R7.

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsemblBacteriaiAAC76211; AAC76211; b3179.
    BAE77223; BAE77223; BAE77223.
    GeneIDi947689.
    KEGGiecj:JW3146.
    eco:b3179.
    PATRICi32121776. VBIEscCol129921_3272.

    Organism-specific databases

    EchoBASEiEB1470.
    EcoGeneiEG11507. rlmE.

    Phylogenomic databases

    eggNOGiENOG4105F7M. Bacteria.
    COG0293. LUCA.
    HOGENOMiHOG000162367.
    InParanoidiP0C0R7.
    KOiK02427.
    OMAiIDIPRAM.
    PhylomeDBiP0C0R7.

    Enzyme and pathway databases

    BioCyciEcoCyc:EG11507-MONOMER.
    ECOL316407:JW3146-MONOMER.
    MetaCyc:EG11507-MONOMER.

    Miscellaneous databases

    EvolutionaryTraceiP0C0R7.
    PROiP0C0R7.

    Family and domain databases

    Gene3Di3.40.50.150. 1 hit.
    HAMAPiMF_01547. RNA_methyltr_E. 1 hit.
    InterProiIPR015507. rRNA-MeTfrase_E.
    IPR002877. rRNA_MeTrfase_FtsJ_dom.
    IPR004512. rRNA_MeTrfase_gammaproteobac.
    IPR029063. SAM-dependent_MTases.
    [Graphical view]
    PANTHERiPTHR10920. PTHR10920. 1 hit.
    PfamiPF01728. FtsJ. 1 hit.
    [Graphical view]
    PIRSFiPIRSF005461. 23S_rRNA_mtase. 1 hit.
    SUPFAMiSSF53335. SSF53335. 1 hit.
    TIGRFAMsiTIGR00438. rrmJ. 1 hit.
    ProtoNetiSearch...

    Entry informationi

    Entry nameiRLME_ECOLI
    AccessioniPrimary (citable) accession number: P0C0R7
    Secondary accession number(s): P28692, Q2M933
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 6, 2005
    Last sequence update: December 6, 2005
    Last modified: September 7, 2016
    This is version 94 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

    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.