Modomics - A Database of RNA Modifications

ID Card:

Full name: rRNA adenine N-6-methyltransferase
Synonym: macrolide-lincosamide-streptogramin B resistance 23S rRNA methyltransferase
GI: 127202
Orf: ermAM
COG: COG0030
UniProt: P21236
Structures: | 1YUB |
Alpha Fold Predicted Structure: AF-P21236-F1
Enzyme type: methyltransferase
Position of modification - modification: l:2085(2085) - m6A


PDB Structures:


1YUB

Structure Description:

Title:
Classification:
Technique:

Abstract of the PDB Structure's related Publication:

The Erm family of methyltransferases is responsible for the development of resistance to the macrolide-lincosamide-streptogramin type B (MLS) antibiotics. These enzymes methylate an adenine of 23S ribosomal RNA that prevents the MLS antibiotics from binding to the ribosome and exhibiting their antibacterial activity. Here we describe the three-dimensional structure of an Erm family member, ErmAM, as determined by NMR spectroscopy. The catalytic domain of ErmAM is structurally similar to that found in other methyltransferases and consists of a seven-stranded beta-sheet flanked by alpha-helices and a small two-stranded beta-sheet. In contrast to the catalytic domain, the substrate binding domain is different from other methyltransferases and adopts a novel fold that consists of four alpha-helices.

Download RCSB-PDB Structures:

Pdb Files   1YUB.pdb  
Pdbx/mmCIF Files   1YUB.cif  


Protein sequence:

MNKNIKYSQNFLTSEKVLNQIIKQLNLKETDTVYEIGTGKGHLTTKLAKISKQVTSIELDSHLFNLSSEKLKLNIRVTLIHQDILQFQFPNKQRYKIVGSIPYHLSTQIIKKVVFESHASDIYLIVEEGFYKRTLDIHRTLGLLLHTQVSIQQLLKLPAECFHPKPKVNSVLIKLTRHTTDVPDKYWKLYTYFVSKWVNREYRQLFTKNQFHQAMKHAKVNNLSTITYEQVLSIFNSYLLFNGRK

Comments:

ErmAM methylates the exocyclic amine of A2085 in helix 75 of 23S rRNA. It is responsible for the development of bacterial resistance to lincosamide/ Streptogramin-type of antibiotics.




Reaction Substrate SubstrateType Position (Anti)Codon Modified (Anti)Codon Amino Acid Change Transcript Name Transcript Region Cellular Localization References
A:m6A RNA rRNA 2085 LSU-23S Prokaryotic Cytosol 9187657   

Alpha Fold Predicted Structure:






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Protein sequence:

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

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-P21236-F1.pdb  
Alpha Fold Pdbx/mmCIF Files   AF-P21236-F1.cif  
DSSP Secondary Structures   P21236.dssp  





Publications:

Title Authors Journal Details PubMed Id DOI
Nucleotide sequence of the erythromycin resistance gene of the conjugative transposon Tn1545. Trieu-Cuot P, Poyart-Salmeron C, Carlier C, Courvalin P Nucleic Acids Res [details] 2163525 -
Solution structure of an rRNA methyltransferase (ErmAM) that confers macrolide-lincosamide-streptogramin antibiotic resistance. Yu L, Petros AM, Schnuchel A, Zhong P, Severin JM, Walter K, Holzman TF, Fesik SW Nat Struct Biol [details] 9187657 -

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