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⊟Summary[edit | edit source]

  • pan ID?: SAUPAN006488000
  • symbol?: gidA
  • synonym:
  • description?: tRNA uridine-5-carboxymethylaminomethyl(34) synthesis enzyme MnmG

      descriptions from strain specific annotations:

    • tRNA uridine-5-carboxymethylaminomethyl(34) synthesis enzyme MnmG
    • tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA
    • tRNA uridine 5-carboxymethylaminomethyl modification protein GidA
    • mnmG: tRNA uridine 5-carboxymethylaminomethyl modification enzyme mnmG (trmFO)
    • glucose inhibited division protein A
    • tRNA uridine 5-carboxymethylaminomethyl modification protein MnmG
  • strand?: -
  • coordinates?: 6522048..6523832
  • synteny block?: BlockID0051950
  • occurrence?: in 100% of 34 strains

mnmG (gidA) : tRNA uridine(34)-C(5)-carboxymethylaminomethyltransferase subunit G [1]

Transfer RNAs containing uridine at wobble anticodon position 34 often require modifications to provide maximal fidelity during protein synthesis starting from a shared 5-carboxymethylaminomethyl-2-thiouridine(34) (“cmnm5s2U”, “$”) generated by MnmAEG. In the second step, MnmE binds its glycine, GTP and methylene-tetrahydrofolate cofactors and MnmG binds NADH and FAD cofactors. The monomers bind 2-thiouridine(34) tRNA as a dimer of dimers and the methylene group from methylene-THF is transferred to the NADH-reduced FAD. This positions the reactive FAD-bound methylene group for transfer to the C(5) position of the bound tRNA. Finally, GTP hydrolysis by the MnmE subunit alters the heterotetramer conformation bringing the amino nitrogen of glycine close enough to react with the 5-methylene-2-thiouridine(34) resulting in 5-carboxymethylaminomethyl-2-thiouridine(34) tRNA. Alternatively, MnmE can bind an ammonium cofactor instead of glycine resulting in modest production of 5-aminomethyl-2-thiouridine(34) tRNA.

  • tRNA : s2U (34) → cmnm5s2U (34)

⊟Orthologs[edit | edit source]

    COL:
    SACOL2737 (gidA)
    N315:
    SA2500 (gidA)
    NCTC8325:
    SAOUHSC_03052
    Newman:
    NWMN_2611 (gidA)
    USA300_FPR3757:
    SAUSA300_2645 (gidA)
    04-02981:
    SA2981_2650 (gidA)
    08BA02176:
    C248_2776 (gidA)
    11819-97:
    MS7_2715 (gidA)
    6850:
    RSAU_002559 (trmFo)
    71193:
    ST398NM01_2756
    ECT-R 2:
    ECTR2_2562 (gidA)
    ED133:
    SAOV_2752c
    ED98:
    SAAV_2782 (gidA)
    HO 5096 0412:
    SAEMRSA15_26090 (gidA)
    JH1:
    SaurJH1_2790 (gidA)
    JH9:
    SaurJH9_2733 (gidA)
    JKD6008:
    SAA6008_02772 (gidA)
    JKD6159:
    SAA6159_02604 (gidA)
    JSNZ:
    JSNZ_002698 (mnmG)
    LGA251:
    SARLGA251_24750 (gidA)
    M013:
    M013TW_2697
    MRSA252:
    SAR2797 (gidA)
    MSHR1132:
    SAMSHR1132_25380
    MSSA476:
    SAS2593 (gidA)
    Mu3:
    SAHV_2695 (gidA)
    Mu50:
    SAV2711 (gidA)
    MW2:
    MW2629 (gidA)
    RF122:
    SAB2587c (gidA)
    ST398:
    SAPIG2756 (gidA)
    T0131:
    SAT0131_02993
    TCH60:
    HMPREF0772_10471 (gidA)
    TW20:
    SATW20_28490 (gidA)
    USA300_TCH1516:
    USA300HOU_2714 (gidA)
    VC40:
    SAVC_12445

⊟Genome Viewer[edit | edit source]

COL
N315
NCTC8325
Newman
USA300_FPR3757

⊟Alignments[edit | edit source]

  • alignment of orthologues:
    CLUSTAL format alignment by MAFFT L-INS-i (v7.307)


    COL             MVQEYDVIVIGAGHAGVEAGLASARRGAKTLMLTINLDNIAFMPCNPSVGGPAKGIVVRE
    N315            MVQEYDVIVIGAGHAGVEAGLASARRGAKTLMLTINLDNIAFMPCNPSVGGPAKGIVVRE
    NCTC8325        MVQEYDVIVIGAGHAGVEAGLASARRGAKTLMLTINLDNIAFMPCNPSVGGPAKGIVVRE
    Newman          MVQEYDVIVIGAGHAGVEAGLASARRGAKTLMLTINLDNIAFMPCNPSVGGPAKGIVVRE
    USA300_FPR3757  MVQEYDVIVIGAGHAGVEAGLASARRGAKTLMLTINLDNIAFMPCNPSVGGPAKGIVVRE
                    ************************************************************

    COL             IDALGGQMAKTIDKTHIQMRMLNTGKGPAVRALRAQADKVLYQQEMKRVIEDEENLHIMQ
    N315            IDALGGQMAKTIDKTHIQMRMLNTGKGPAVRALRAQADKVLYQQEMKRVIEDEENLHIMQ
    NCTC8325        IDALGGQMAKTIDKTHIQMRMLNTGKGPAVRALRAQADKVLYQQEMKRVIEDEENLHIMQ
    Newman          IDALGGQMAKTIDKTHIQMRMLNTGKGPAVRALRAQADKVLYQQEMKRVIEDEENLHIMQ
    USA300_FPR3757  IDALGGQMAKTIDKTHIQMRMLNTGKGPAVRALRAQADKVLYQQEMKRVIEDEENLHIMQ
                    ************************************************************

    COL             GMVDELIIEDNEVKGVRTNIGTEYLSKAVIITTGTFLRGEIILGNMKYSSGPNHQLPSIT
    N315            GMVDELIIEDNEVKGVRTNIGTEYLSKAVIITTGTFLRGEIILGNMKYSSGPNHQLPSIT
    NCTC8325        GMVDELIIEDNEVKGVRTNIGTEYLSKAVIITTGTFLRGEIILGNMKYSSGPNHQLPSIT
    Newman          GMVDELIIEDNEVKGVRTNIGTEYLSKAVIITTGTFLRGEIILGNMKYSSGPNHQLPSIT
    USA300_FPR3757  GMVDELIIEDNEVKGVRTNIGTEYLSKAVIITTGTFLRGEIILGNMKYSSGPNHQLPSIT
                    ************************************************************

    COL             LSDNLRELGFDIVRFKTGTPPRVNSKTIDYSKTEIQPGDDVGRAFSFETTEYILDQLPCW
    N315            LSDNLRELGFDIVRFKTGTPPRVNSKTIDYSKTEIQPGDDVGRAFSFETTEYILDQLPCW
    NCTC8325        LSDNLRELGFDIVRFKTGTPPRVNSKTIDYSKTEIQPGDDVGRAFSFETTEYILDQLPCW
    Newman          LSDNLRELGFDIVRFKTGTPPRVNSKTIDYSKTEIQPGDDVGRAFSFETTEYILDQLPCW
    USA300_FPR3757  LSDNLRELGFDIVRFKTGTPPRVNSKTIDYSKTEIQPGDDVGRAFSFETTEYILDQLPCW
                    ************************************************************

    COL             LTYTNAETHKVIDDNLHLSAMYSGMIKGTGPRYCPSIEDKFVRFNDKPRHQLFLEPEGRN
    N315            LTYTNAETHKVIDDNLHLSAMYSGMIKGTGPRYCPSIEDKFVRFNDKPRHQLFLEPEGRN
    NCTC8325        LTYTNAETHKVIDDNLHLSAMYSGMIKGTGPRYCPSIEDKFVRFNDKPRHQLFLEPEGRN
    Newman          LTYTNAETHKVIDDNLHLSAMYSGMIKGTGPRYCPSIEDKFVRFNDKPRHQLFLEPEGRN
    USA300_FPR3757  LTYTNAETHKVIDDNLHLSAMYSGMIKGTGPRYCPSIEDKFVRFNDKPRHQLFLEPEGRN
                    ************************************************************

    COL             TNEVYVQGLSTSLPEHVQRQMLETIPGLEKADMMRAGYAIEYDAIVPTQLWPTLETKMIK
    N315            TNEVYVQGLSTSLPEHVQRQMLETIPGLEKADMMRAGYAIEYDAIVPTQLWPTLETKMIK
    NCTC8325        TNEVYVQGLSTSLPEHVQRQMLETIPGLEKADMMRAGYAIEYDAIVPTQLWPTLETKMIK
    Newman          TNEVYVQGLSTSLPEHVQRQMLETIPGLEKADMMRAGYAIEYDAIVPTQLWPTLETKMIK
    USA300_FPR3757  TNEVYVQGLSTSLPEHVQRQMLETIPGLEKADMMRAGYAIEYDAIVPTQLWPTLETKMIK
                    ************************************************************

    COL             NLYTAGQINGTSGYEEAAGQGLMAGINAAGKVLNTGEKILSRSDAYIGVLIDDLVTKGTN
    N315            NLYTAGQINGTSGYEEAAGQGLMAGINAAGKVLNTGEKILSRSDAYIGVLIDDLVTKGTN
    NCTC8325        NLYTAGQINGTSGYEEAAGQGLMAGINAAGKVLNTGEKILSRSDAYIGVLIDDLVTKGTN
    Newman          NLYTAGQINGTSGYEEAAGQGLMAGINAAGKVLNTGEKILSRSDAYIGVLIDDLVTKGTN
    USA300_FPR3757  NLYTAGQINGTSGYEEAAGQGLMAGINAAGKVLNTGEKILSRSDAYIGVLIDDLVTKGTN
                    ************************************************************

    COL             EPYRLLTSRAEYRLLLRHDNADLRLTDMGYELGMISEERYARFNEKRQQIDAEIKRLSDI
    N315            EPYRLLTSRAEYRLLLRHDNADLRLTDMGYELGMISEERYARFNEKRQQIDAEIKRLSDI
    NCTC8325        EPYRLLTSRAEYRLLLRHDNADLRLTDMGYELGMISEERYARFNEKRQQIDAEIKRLSDI
    Newman          EPYRLLTSRAEYRLLLRHDNADLRLTDMGYELGMISEERYARFNEKRQQIDAEIKRLSDI
    USA300_FPR3757  EPYRLLTSRAEYRLLLRHDNADLRLTDMGYELGMISEERYARFNEKRQQIDAEIKRLSDI
                    ************************************************************

    COL             RIKPNEHTQAIIEQHGGSRLKDGILAIDLLRRPEMTYDIILELLEEEHQLNADVEEQVEI
    N315            RIKPNEHTQAIIEQHGGSRLKDGILAIDLLRRPEMTYDIILEILEEEHQLNADVEEQVEI
    NCTC8325        RIKPNEHTQAIIEQHGGSRLKDGILAIDLLRRPEMTYDIILELLEEEHQLNADVEEQVEI
    Newman          RIKPNEHTQAIIEQHGGSRLKDGILAIDLLRRPEMTYDIILELLEEEHQLNADVEEQVEI
    USA300_FPR3757  RIKPNEHTQAIIEQHGGSRLKDGILAIDLLRRPEMTYDIILELLEEEHQLNADVEEQVEI
                    ******************************************:*****************

    COL             QTKYEGYINKSLQQVEKVKRMEEKKIPEDLDYSKIDSLATEAREKLSEVKPLNIAQASRI
    N315            QTKYEGYINKSLQQVEKVKRMEEKKIPEDLDYSKIDSLATEAREKLSEVKPLNIAQASRI
    NCTC8325        QTKYEGYINKSLQQVEKVKRMEEKKIPEDLDYSKIDSLATEAREKLSEVKPLNIAQASRI
    Newman          QTKYEGYINKSLQQVEKVKRMEEKKIPEDLDYSKIDSLATEAREKLSEVKPLNIAQASRI
    USA300_FPR3757  QTKYEGYINKSLQQVEKVKRMEEKKIPEDLDYSKIDSLATEAREKLSEVKPLNIAQASRI
                    ************************************************************

    COL             SGVNPADISILLIYLEQGKLQRVSD
    N315            SGVNPADISILLIYLEQGKLQRVSD
    NCTC8325        SGVNPADISILLIYLEQGKLQRVSD
    Newman          SGVNPADISILLIYLEQGKLQRVSD
    USA300_FPR3757  SGVNPADISILLIYLEQGKLQRVSD
                    *************************

  1. ↑ Geoffrey S Briggs, Wiep Klaas Smits, Panos Soultanas
    Chromosomal replication initiation machinery of low-G+C-content Firmicutes.
    J Bacteriol: 2012, 194(19);5162-70
    [PubMed:22797751] [WorldCat.org] [DOI] (I p)    Praneeth Bommisetti, Anthony Young, Vahe Bandarian
    Elucidation of the substrate of tRNA-modifying enzymes MnmEG leads to in vitro reconstitution of an evolutionarily conserved uridine hypermodification.
    J Biol Chem: 2022, 298(11);102548
    [PubMed:36181794] [WorldCat.org] [DOI] (I p)    Praneeth Bommisetti, Vahe Bandarian
    Insights into the Mechanism of Installation of 5-Carboxymethylaminomethyl Uridine Hypermodification by tRNA-Modifying Enzymes MnmE and MnmG.
    J Am Chem Soc: 2023, 145(49);26947-26961
    [PubMed:38050996] [WorldCat.org] [DOI] (I p)
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