Modomics - A Database of RNA Modifications

ID Card:

Full name: 23S rRNA (uracil-C(5))-methyltransferase RlmCD
Synonym: YefA
GI: 50401309
Orf: BSU06730
COG: COG2265
UniProt: O31503
Alpha Fold Predicted Structure: AF-O31503-F1
Enzyme type: methyltransferase
Position of modification - modification: l:749(747) - m5U
l:1968(1939) - m5U



Protein sequence:

MKMKPPVEKNEYYDVTFEDLTHEGAGVAKVQGFPIFVPNALPEEKAQIKVTRVKKGFAFGRLIELKEESPHRTDAPCPIYKQCGGCQLQHMTYEGQLLFKQKQVKDVLERIGKLDLSKVTVHPTLGMEDPWNYRNKAQVPVGEREGGLVAGFYQQRSHDIIDMSACLIQQSKNDEAVQAVKDICANYGVKAYNEERHKGWLRHIMVRYGVVTGEMMIVFITRTSDFPHKAKIIEDITAQFPHVKSIVQNINPNKTNVIFGNETNVIWGEEYIYDLIGDVKFAISARSFYQVNPEQTKVLYDKALEYAELQGEETVIDAYCGIGTISLFLAKQAKKVYGVEIVPEAIEDAKRNAELNGNTNAEFAVGEAETVIPKWYEEGITADTLVVDPPRKGCDEALLRTIVEMKPKRVVYVSCNPGTLARDLRVLEDGGYVTREVQPVDMFPHTNHVECCVLIKLKE

Comments:

Methylation of U747 and U1939 in B. subtilis rRNA is catalysed by a single enzyme while in E. coli two separate enzymes (RlmC and RlmD) are responsible for these two modifications.




Reaction Substrate SubstrateType Position (Anti)Codon Modified (Anti)Codon Amino Acid Change Transcript Name Transcript Region Cellular Localization References
U:m5U RNA rRNA 794 LSU-23S Prokaryotic Cytosol 21824914   
U:m5U RNA rRNA 1968 LSU-23S Prokaryotic Cytosol 21824914   

Alpha Fold Predicted Structure:






Clear Selection and Reset Camera

Protein sequence:

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

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-O31503-F1.pdb  
Alpha Fold Pdbx/mmCIF Files   AF-O31503-F1.cif  
DSSP Secondary Structures   O31503.dssp  





Publications:

Title Authors Journal Details PubMed Id DOI
A single methyltransferase YefA (RlmCD) catalyses both m5U747 and m5U1939 modifications in Bacillus subtilis 23S rRNA. Desmolaize B, Fabret C, Bregeon D, Rose S, Grosjean H, Douthwaite S Nucleic Acids Res [details] 21824914 -

Links:

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