EG50001

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Author Information

Lena Tarhuni

Basic Information

  • ID: EG50001
  • Name: Ribosomal protein L21-Gene- rpIU
  • Organism: Escherichia coli (strain UMEA 3162-1)
  • Description: Ribosomal proteins play a significant role in the translation of mRNA to an amino acid sequence. The ribosomal proteins come along with two subunits of ribosomes that are responsible for carrying out this translation. Ribosomal protein L21 is a part of the 50S ribosomal subunit which binds with 23S rRNA in the presence of protein L20. Therefore, its main molecular function would be rRNA binding, and being a structural constituent of ribosome. Additionally, ribosomal proteins can act independently from the ribosome. They are able to take on replicase roles as well as play an integral part in the regulation and affecting development mechanisms through altered expression levels.
  • DNA Length: 309 base pairs
  • DNA sequence:

ATG TAT GCG GTA TTC CAG AGT GGA GGG AAA CAG CAT CGT GTG AGC GAG GGT CAA ACG GTTCGT CTG GAG AAA TTG GAC ATC GCC ACT GGA GAG ACT GTT GAG TTC GCA GAA GTT CTG ATGATT GCT AAT GGC GAG GAG GTT AAA ATT GGA GTT CCC TTC GTA GAC GGG GGA GTG ATT AAGGCT GAA GTA GTG GCT CAC GGA CGT GGC GAG AAG GTA AAG ATC GTT AAG TTT CGT CGC CGCAAG CAT TAC CGC AAA CAA CAA GGA CAT CGT CAA TGG TTT ACG GAC GTA AAA ATT ACC GGCATC AGT GCT TAA

  • Amino Acid length: 103 Amino Acids
  • Amino Acid sequence:

MYAVFQSGGK QHRVSEGQTV RLEKLDIATG ETVEFAEVLM IANGEEVKIG VPFVDGGVIK AEVVAHGRGE KVKIVKFRRR KHYRKQQGHR QWFTDVKITG ISA

Function and Homologs

  • Product: 50S ribosomal protein L21
  • Closest homologous proteins: The top (max three) homologous proteins to this protein, as identified by BLAST searches.
    • Multispecies: 50S ribosomal protein L21 [proteobacteria], 206/100%/3e-67/ 100% [WP_000271401.1]
    • 50S ribosomal protein L21 [Salmonella enterica subsp. Etnerica serovar Paratyphi C str. RKS], 206/100%/3 e-67/99% [ACN47458.1]
    • 50S ribosomal protein L21 [Enterobacter sp. FY-07], 205/100%/4 e-67/99% [WP_061493008.1]


  • Equivalent E. coli / JCVI functional protein: MMSYN1_0501


Expression

  • Expression Level: HIGH
  • Expression Level Hypothesis: The L21 ribosomal protein must have a high expression level do to its role as a structural constituent of ribosomes and if it is not expressed in high levels, there is a larger likelihood that ribosomes may not be assembled and translation would not be able to occur. This gene is helpful to continuing on to specific protein expressions, however, protein expression may still subsist in its absence making its high expression level insightful.
  • Expression Level References and Description: Data for expression levels was procured through Protein counts derived from the provided E. Coli simulation run. For more insight, research conducted by Provost, Weier, and Leach (2013) titled "Multiple Ribosomal Proteins Are Expressed at High Levels in Developing Zebrafish Endoderm and Are Required for Normal Exocrine Pancreas Development," revealed additional information about the functionality of rpl's such as L21; [1]
  • Expression Time: Early
  • Expression Level Hypothesis: Ribosomal proteins need to be expressed early because they are required in order to begin translating the transcribed base pairs. If they are not expressed early enough, then amino acids will not be expressed as proteins at the proper stage.
  • Expression Time References and Description: Research was obtained through a study regarding the deprivation of specific components essential to ribosome protein expression. [2]

Gene Context

  • Other Components: rpIT: Ribosomal Protein L20, EG10881
  • Possible Dependencies: 23s rRNA-- ribosomes are necessary in the early stages of gene expression and therefore are generally being depended on. However, the 23s rRNA is a necessity to the L21 ribosomal protein.[3]
  • Process: Identify: Translation
    • Inputs: mRNA + tRNA
    • Outputs: rRNA (amino acid sequence)

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