Modomics - A Database of RNA Modifications

ID Card:

Full name: 16S rRNA methyltransferase RmtB
GI: 410610030
UniProt: Q763K9
Structures: | 3FRI | 3FRH | 3B89 |
Alpha Fold Predicted Structure: AF-Q763K9-F1
Enzyme type: methyltransferase
Position of modification - modification: s:1405(1405) - m7G


PDB Structures:


3FRI

Structure Description:

Title:
Classification:
Technique:

Abstract of the PDB Structure's related Publication:

Aminoglycosides are used extensively for the treatment of severe infections due to Gram-negative bacteria. However, certain species have become highly resistant after acquisition of genes for methyltransferases which catalyze post-transcriptional methylation of N7-G1405 in 16 S rRNA of 30 S ribosomal subunits. Inactivation of this enzymatic activity is therefore an important challenge for development of an effective therapy. The present work describes the crystallographic structures of methyltransferases RmtB and ArmA from clinical isolates. Together with biochemical experiments, the 3D structures indicate that the N-terminal domain specific for this family of methyltransferases is required for enzymatic activity. Site-directed mutagenesis has enabled important residues for catalysis and RNA binding to be identified. These high-resolution structures should underpin the design of potential inhibitors of these enzymes, which could be used to restore the activity of aminoglycosides against resistant pathogens.

Download RCSB-PDB Structures:

Pdb Files   3B89.pdb   3FRH.pdb   3FRI.pdb  
Pdbx/mmCIF Files   3B89.cif   3FRH.cif   3FRI.cif  


Protein sequence:

MNINDALTSILASKKYRALCPDTVRRILTEEWGRHKSPKQTVEAARTRLHGICGAYVTPESLKAAAAALSAGDVKKALSLHASTKERLAELDTLYDFIFSAETPRRVLDIACGLNPLALYERGIASVWGCDIHQGLGDVITPFAREKDWDFTFALQDVLCAPPAEAGDLALIFKLLPLLEREQAGSAMALLQSLNTPRMAVSFPTRSLGGRGKGMEANYAAWFEGGLPAEFEIEDKKTIGTELIYLIKKNG

Comments:

not present in E.coli K12, only in antibiotic-resistant clinical strains




Reaction Substrate SubstrateType Position (Anti)Codon Modified (Anti)Codon Amino Acid Change Transcript Name Transcript Region Cellular Localization References
G:m7G RNA rRNA 1405 SSU-16S Prokaryotic Cytosol 19303884   

Alpha Fold Predicted Structure:






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Protein sequence:

M N I N D A L T S I L A S K K Y R A L C P D T V R R I L T E E W G R H K S P K Q T V E A A R T R L H G I C G A Y V T P E S L K A A A A A L S A G D V K K A L S L H A S T K E R L A E L D T L Y D F I F S A E T P R R V L D I A C G L N P L A L Y E R G I A S V W G C D I H Q G L G D V I T P F A R E K D W D F T F A L Q D V L C A P P A E A G D L A L I F K L L P L L E R E Q A G S A M A L L Q S L N T P R M A V S F P T R S L G G R G K G M E A N Y A A W F E G G L P A E F E I E D K K T I G T E L I Y L I K K N G

Secondary Structure Alphabet

  • G: 3-turn helix (310helix)
  • H: α-helix
  • I: 𝝅-helix (5 - turn helix)
  • T: Hydrogen Bonded Turn
  • B: β-sheet
  • S: Bend
  • C: Coil (residues not present in any of the above conformations)
  • N: Not assigned

Download PDB Structures & DSSP Secondary Structures:

Alpha Fold Pdb Files   AF-Q763K9-F1.pdb  
Alpha Fold Pdbx/mmCIF Files   AF-Q763K9-F1.cif  
DSSP Secondary Structures   Q763K9.dssp  





Publications:

Title Authors Journal Details PubMed Id DOI
Sequence analysis and structure prediction of aminoglycoside-resistance 16S rRNA:m7G methyltransferases. Bujnicki JM, Rychlewski L Acta Microbiol Pol [details] 11518396 -
Structural bases for 16 S rRNA methylation catalyzed by ArmA and RmtB methyltransferases. Schmitt E, Galimand M, Panvert M, Courvalin P, Mechulam Y J Mol Biol [details] 19303884 -