MMSYN1 0524

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Author Information

Eva Frankel

Basic Information

  • ID: MMSYN1_0524
  • Name: rsmH
  • Organism: JCVI-Syn3.0
  • Description: These gene codes for the enzyme ribosomal RNA small subunit methyltransferase H, which catalyzes the reaction S-adenosyl-L-methionine + cytosine(1402) in 16S rRNA = S-adenosyl-L-homocysteine + N(4)-methylcytosine(1402) in 16S rRNA. This enzyme is found in the cytoplasm. [1] Methyltransferases are responsible for transferring methyl between molecules. [2]
  • DNA Length: 927
  • DNA sequence:


  • Amino Acid length: 308
  • Amino Acid sequence:


Function and Homologs

  • Product: Ribosomal RNA small subunit methyltransferase H
  • Module: RNA base methylation
  • Closest homologous proteins:
    • 16S rRNA (cytosine(1402)-N(4))-methyltransferase [Mycoplasma feriruminatoris], 578/100%/0.0/92%, [3]
    • 16S rRNA (cytosine(1402)-N(4))-methyltransferase [Mycoplasma capricolum], 546/100%/0.0/86%, [4]
    • 16S rRNA (cytosine(1402)-N(4))-methyltransferase [Mycoplasma leachii], 541/100%/0.0/85%, [5]
  • Equivalent E. coli / JCVI functional protein: EG11085


  • Expression Level: High
  • Expression Level Hypothesis:  rsmH is thought to increase translational accuracy (specifically, methylation of cytosine 1402 is involved in increasing the decoding fidelity by fine-tuning the shape and functions of the peptidyl site). Because translation is extremely important and needs to be successful for every strand of mRNA to form a protein, rsmH would be expressed at a high level.
  • Expression Level References and Description: I used the M. genitalium database, where rsmH is called mraW and is expressed at 263 proteins/cell (high). I also used the function, which I found information about here.
  • Expression Time: Early
  • Expression Level Hypothesis: The small subunit of rRNA, which contains 16S rRNA (both the input and the output of the process this enzyme catalyzes), is crucial for proper translation of mRNA. For anything else in the cell to work, mRNA needs to be properly translated into a protein chain. Since ribosome activity and translation is one of the first processes the cell undergoes, this gene should be expressed early.
  • Expression Time References and Description: Guesses from function, which was found here.

Gene Context

  • Other Components: MMSYN1 0202, any other piece of the ribosome
  • Possible Dependencies: This gene is involved in methylating 16S rRNA. Therefore, it would be dependent upon the proper expression of a gene like MMSYN1 0403, which is responsible for processing 16S rRNA.
  • Process: S-adenosyl-L-methionine + cytosine(1402) in 16S rRNA = S-adenosyl-L-homocysteine + N(4)-methylcytosine(1402) in 16S rRNA [6]
    • Inputs: S-adenosyl-L-methionine, cytosine(1402) in 16S rRNA
    • Outputs: S-adenosyl-L-homocysteine, N(4)-methylcytosine(1402) in 16S rRNA


We will handle this - not part of your assignment

  • Synthesis Score: The synthesis score: 1, 2,3
  • Predicted Translation Rate: Prediction of construct translation rate from the RBS calculator
  • Design Notes and Details:
  • GenBank File: A link to the GenBank file. file