Coding

Part:BBa_K5492401:Design

Designed by: Norbert Nyeste   Group: iGEM24_TERMOSZ-Selye-HUN   (2024-09-10)
Revision as of 16:58, 26 September 2024 by Simonkasara (Talk | contribs) (→‎Design Notes)


Optimised Human Histamine-N-Methlytransferase - HNMT


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Illegal EcoRI site found at 100
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal EcoRI site found at 100
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal EcoRI site found at 100
  • 23
    INCOMPATIBLE WITH RFC[23]
    Illegal EcoRI site found at 100
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal EcoRI site found at 100
  • 1000
    COMPATIBLE WITH RFC[1000]


Design Notes

Codon optimisation for E.coli:

Position Changes 10 TCC -> TCT 16 AGG -> CGT 58 CGG -> CGT 61 AGG -> CGT 67 CTC -> CTG 76 TCC -> TCT 121 CCA -> CCG 127 ATA -> ATC 130 ATA -> ATC 136 AGG -> CGT 175 ATA -> ATC 202 CTT -> CTG 211 CTC -> CTG 214 TCC -> TCT 235 CCA -> CCG 268 CCA -> CCG 286 GCC -> GCT 301 CTT -> CTG 307 GCC -> GCT 322 CTC -> CTG 376 AGA -> CGT 397 CTT -> CTG 454 CCA -> CCG 481 CTC -> CTG 484 TTA -> CTG 505 CTC -> CTG 571 CCC -> CCG 583 CTC -> CTG 610 CTC -> CTG 634 GGG -> GGC 637 CTT -> CTG 658 CTT -> CGG 664 TCC -> TCT 711 A -> C 715 CTT -> CTG 754 GCC -> GCT 763 CCA -> CCG 766 CCT -> CCG 772 CTC -> CTG 775 AGA -> CGT 784 CTT -> CTG 787 GGG -> GGC 805 CCT -> CCG 829 GGG -> GGC 838 CTT -> CTG 862 ATA -> ATC

Source

https://www.ncbi.nlm.nih.gov/nuccore/AH003685, BBa_K5492400

References

Dong H, Nilsson L, Kurland CG. Co-variation of tRNA abundance and codon usage in Escherichia coli at different growth rates. J Mol Biol. 1996 Aug 2;260(5):649-63. doi: 10.1006/jmbi.1996.0428. PMID: 8709146.

Lipinszki Z, Vernyik V, Farago N, Sari T, Puskas LG, Blattner FR, Posfai G, Gyorfy Z. Enhancing the Translational Capacity of E. coli by Resolving the Codon Bias. ACS Synth Biol. 2018 Nov 16;7(11):2656-2664. doi: 10.1021/acssynbio.8b00332. Epub 2018 Nov 2. PMID: 30351909.