Part:BBa_K3088001:Design
HBEGF/ENVZ Chimeric Complete
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21COMPATIBLE WITH RFC[21]
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000COMPATIBLE WITH RFC[1000]
Design Notes
Sequencing of this part (BBa_K3088001) combined with part (BBa_K769001) into pSB1C3 is confirmed and showed as follow:
AAAGATGGACTGACTGAATGCCTCAAATGTTCTTTACGATGCCATTGGGATATATCAACGGTGGTATATCCAGTGATTTTTTTCTCCATTTTAGCTTCCT TAGCTCCTGAAAATCTCGATAACTCAAAAAATACGCCCGGTAGTGATCTTATTTCATTATGGTGAAAGTTGGAACCTCTTACGTGCCCGATCAACTCGAG TGCCACCTGACGTCTAAGAAACCATTATTATCATGACATTAACCTATAAAAATAGGCGTATCACGAGGCAGAATTTCAGATAAAAAAAATCCTTAGCTTT CGCTAAGGATGATTTCTGGAAGTGCCATTCCGCCTGACCTAGTTCAAGTGTCCGAGAAGAATTCGCGGCCGCTTCTAGAGAGGTACTGACTCATAAAAAA TTTATTTGCTTTGTGAGCGGATAACAATTATAATAACGATCGCGAAAGAGGAGAAATACGCGATCGAAGATGCGTCGTCTGCGTTTTAGTCCACGCAGCT CGTTTGCACGTACGCTTTTGTTAATCGTTACATTGCTTTTTGCTTCCCTGGTCACCACTTACTTAGTTGTATTAAACTTCGCAATCTTGCCAAGTCTGCA ACAGTTTAACAAGGTATTGGCTTACGAGGTTCGCATGCTTATGACCGACAAACTTCAATTGGAAGACGGGACTCAACTGGTTGTACCACCCGCATTTCGC CGTGAGAAGTACGTTAAGGAATTGCGCGCCCCCAGTTGCATCTGTCACCCCGGATACCATGGAGAGCGCTGCCACGGCTTGTCACTGGTGCCGTTGACAG AGATCCATCAGGGTGACTTTAGCCCGCTTTTCCGTTATACGTTGGCAATTATGTTACTTGCCATCGGTGGCGCATGGTTATTTATTCGCATTCAGAACCG TCCGTTGGTCGATTTAGAGCACGCTGCACTTCAAGTTGGTAAGGGCATCATCCCGCCACCATTGCGCGAGTACGGGGCCTCGGAAGTACGTAGTGTTACT CGTGCCTTCAATCATATGGCCGCCGGTGTTAAGCAGTTAGCAGACGACCGCACTCTGTTGATGGCTGGCGGGTCTCATGATTTGCGNACCCCCTGACNCG TATCCGCCTGGCTACTGAAATGATGTCGGAACAGGATGGAACTTGGCCGAGTCCTCAATAAAGACTTGAGGAATGAACGCTTTATTGAACGTTCTCCACT TTTGCTACCGCCCGAAANCCTTTGAANGGGACNNNATGGGGTTGGGGANAATTTTGCCAAANNGGGTCAACCGGAANNNAAAGGGCTTCCCCNNTTTTGG GGGAAAANNNNNCCCTTTTTTGNNNGGCCCTAAGGTTTAACCNNCCCCCGAAAAGGGGGTAAGGGNCCCNNNCCCCNCCNCCCGTTTTGGNNGGGAGGAC GNCCCCCCCCNA
I.EnvZ/HBEGF Receptor Modelling
The chimeric receptor that we are working on is based from two different integral membrane proteins, EnvZ and HBEGF. EnvZ and HBEGF are basically a fully function protein receptor that can be found in Escherichia coli and human respectively. Our chimeric receptor will structurally consist of EnvZ structure as the base structure and HBEGF as part of periplasmic domain as well as the Diphtheria Toxin Binding Region. In order to model the EnvZ/HEBGF chimeric receptor, we should gather information about the amino acid sequence from both of the EnvZ and HBEGF. We use information from online database, Uniprot1, and gather the FASTA (https://www.uniprot.org/uniprot/Q99075 and https://www.uniprot.org/uniprot/P0AEJ4). To determine on which residue of EnvZ we should insert HBEGF in, we run secondary structure prediction of EnvZ via NetSurfP2. Then we predict its topography using TOPCONS webserver3. The topography data from both TOPCONS3 and Uniport1 database give a very similar result. Thus, using the topography data and the secondary structure information, we predict the sequence of EnvZ graphically as shown below.
Source
This part was obtained by reverse translation from extensive protein modeling of HBEGF/ENVZ. The DNA sequence of both parts were obtained from National Center for Biotechnology Information (NCBI) & UniProt database