NRPS – Delfibactin project
by Ilia
1. delfibactin:
- export from biocompartiments: unspecific outer membrane transporter (so delfibactin gets into medium)
- synthesis: pathway known, e.coli strain for production (maybe not clone DelC)
2. NRPS: introduction
- modular enzymes: 3 modular domains (together 110 kDa)
- steps: adenylation, acylation, condensation
3. software: input
- match amino acid to known A-domain substrates
- recognize easy modification (in amino acids) for which substrate you need it
- method: substructure based algorithm for searching and predicting substrate specifity
- it works in a R-package
- 10 amino acids are important for the substrate specifity
4. biobrick library
- there is no standard for the Biobricks of NRPS
GHB
by Flo and Nils
1. Jugend forscht: done a test (we do not understand how it works)
- not reached the supervisor yet
- she didn't win anything
- detect it via Spectrometry
2. 3 ideas for integrating the receptor
- artifiial membranes are not an option (you can't predict how the protein is located)
- in vitro expression of GPCRs (takes too long)
- Luciferase activity under directt ligand-dependent control of muscarinic acetylcholine receptor
=> measurments possible (very sensitive: represses glowing a little bit, a bit more... but never completely)
(integrate it is fast, but the mutagenesis takes a long time)
Artificial yeast-cells for sensing Insulin-level and producing/distribute the Insulin
by Flo
- presentation of the idea and past igem projects regarding this theme
- semipermeable biocapsules (with cells inside)
- the cells (yeast , bacillus subtilis, e.coli... ) for producing insulin if it is necessary
- there exists a famous lab for synthetic biology which works on insulin production
Software Project
by Julia, Konrad and Hanna
- parameters for statistical analysis and how they correlate (like teammembers, advisors, organsims, score regarding a scoring funtion)
- graphics: basically histograms
work for the next weeks
1. software project
- look on the focus of the team!
- better definition of the parameters
- estimate the cost of an IGEM project (there exists something for the nature paper... just looking at the methods etc...)
- already made something with these parameters
- clustering for example, not only directed
- software project should be finished before the lab phase: end of June/ July
2. Gold Project
- working on this project: Nils, Ilia, Julia, Ralf, Hanna
- find stuff we have to order and send Dominik an email => done!
- talk to companies (interested, is it done already and how, are there established assays)
- find succesful examples
3. general information
- we have to register and then apply for the team. LogIn
- send an email for getting the contact details (parameters which here already used)
Agenda for next meeting (29.04.2013 at 5 pm)
- results of pilot project (delfibactin in the lab)
- present a project plan (goals, time etc.)
- update on the software project. How to proceed etc.
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