EG10886

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Author Information

Luis Fernando Varela

Basic Information

  • ID: EG10886
  • Name: rpmB
  • Organism: E. coli
  • Description: The L28 protein is a component of the 50S subunit of the ribosome and is required for ribosome assembly. L28 interacts with 23S rRNA and crosslinks to L9. L28 is labeled by the macrolides carbomycin A, niddamycin and tylosin, which inhibit ribosomal activity. As a note, 50S is the larger subunit of the 70S ribosome of prokaryotes. It is the site of inhibition for antibiotics such as macrolides, chloramphenicol, clindamycin, and the pleuromutilins. Also, for its functions, 50S includes the activity that catalyzes peptide bond formation (peptidyl transfer reaction), prevents premature polypeptide hydrolysis, provides a binding site for the G-protein factors (assists initiation, elongation, and termination), and helps protein folding after synthesis.
  • DNA Length: 234 base pairs.
  • DNA sequence:

ATG TCG CGC GTG TGT CAA GTT ACA GGT AAA CGC CCT GTA ACG GGG AAT AAT CGC TCC CAT GCA CTT AAC GCC ACT AAA CGT CGT TTT CTT CCG AAC CTG CAC TCT CAC CGC TTT TGG GTC GAG TCT GAG AAG CGT TTC GTG ACA CTG CGC GTA TCC GCC AAG GGA ATG CGT GTA ATC GAC AAG AAG GGA ATC GAC ACA GTT CTG GCT GAA CTT CGT GCT CGC GGT GAG AAA TAT

  • Amino Acid length: 78 amino acids.
  • Amino Acid sequence:

MSRVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRVSAKGMRVIDKKGIDTVLAELRARGEKY

Function and Homologs

  • Product: 50S ribosomal protein L28
  • Closest homologous proteins: The top (max three) homologous proteins to this protein, as identified by BLAST searches.
    • 50S ribosomal protein L28 [Shigella boydii], Max score: 161 / Query Cover: 100% / E-Value: 1e-50 / Ident: 99%, WP_075331208.1
    • 50S ribosomal protein L28 [Shigella flexneri], Max score: 160 / Query Cover: 100% / E-Value: 5e-50 / Ident: 99%, WP_064198875.1
    • 50S ribosomal protein L28 [Kluyvera intermedia], Max score: 160 /Query Cover: 100% / E-Value: 6e-50 / Ident: 97%, WP_062775871.1

Expression

  • Expression Level: high
  • Expression Level Hypothesis: is a part of a functioning ribosomes, which the cell needs in order to build all proteins; a large number of ribosomes facilitates fast cell growth.
  • Expression Level References and Description: M. genitalium model data
  • Expression Time: right at the beginning
  • Expression Level Hypothesis: This protein is a subunit of the ribosome and is critical in the ribosome assembly, which is critical for protein synthesis, so my theory is that it should function right at the beginning
  • Expression Time References and Description: Found information about ribosomes and their functionality in [1]

Gene Context

Construct

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  • 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