User:Scmohr/Specialized Doc Score
Contents
- 1 Additional (or Modified) Documentation Required for Specific Categories of Simple Parts
- 1.1 Protein coding sequences (CDS’s) / Enzymes
- 1.2 Protein coding sequences (CDS’s) / Repressors and Activators
- 1.3 Protein coding sequences (CDS’s) / Reporters
- 1.4 Protein coding sequences (CDS’s) / Uncategorized
- 1.5 Protein coding sequences (CDS’s) / (Binary!) Fusion Proteins (new category)
- 1.6 Ribosome binding Sites (RBS’s)
- 1.7 Terminators
- 1.8 Promoters (suggested renaming of “Regulatory regions”)
- 1.9 RNA
- 1.10 DNA
- 1.11 Conjugation
Additional (or Modified) Documentation Required for Specific Categories of Simple Parts
(Relative to All Parts List of 8/20/07)
Scott C. Mohr (8/21/07)
Protein coding sequences (CDS’s) / Enzymes
ADD:
Enzyme Commission (EC) number (if assigned) (1)
Kyoto Encyclopedia of Genes and Genomes (KEGG ) reaction number (if assigned) (1)
Protein coding sequences (CDS’s) / Repressors and Activators
ADD:
Repressor? ______ (yes/no) Activator?______ (yes/no) Both?______ (yes/no) (1)
N.B., Both choices are necessary since some proteins are repressors under some circumstances and activators under other circumstances.
Regulatory ligands/effects: _____________________ (list in a box?) (1)
Protein coding sequences (CDS’s) / Reporters
ADD:
Fluorescent ? yes/no b. Luminescent ? yes/no c. Other ? __________ (1)
Spectroscopic data: (a) absorption max. ______ nm (2) (b) emission max. ______ nm (c) luminescent max. ______ nm (d) other notable spectroscopic features: _____________ ________________________________________________________
Annotation to the IP-issue entry: VERY IMPORTANT FOR REPORTERS! (1)
E.C. number (if applicable)
Protein coding sequences (CDS’s) / Uncategorized
ADD: nothing OMIT: nothing
Protein coding sequences (CDS’s) / (Binary!) Fusion Proteins (new category)
ADD:
Method used to fuse the two components. (2)
Feature annotation of the linker spanning the two fused segments (1)
Sources of both sequences. (6) [Note the high point value!]
OMIT:
E.C. number(s) – if inappropriate
Ribosome binding Sites (RBS’s)
ADD: nothing OMIT: Nothing
Terminators
ADD: nothing (best mFold structure?) OMIT: nothing
Promoters (suggested renaming of “Regulatory regions”)
ADD: •In the part “long description,” INDICATE SPECIFICALLY IF THIS IS A COMPOSITE PART (i.e. whether or not it encodes a repressor/activator binding site, and if so, the identity of the repressor/activator and co-repressor/inducer.) (2)
•Under dependencies, be sure to include chassis type, growth conditions and any other key factors that relate to the promoter function. (2)
OMIT: nothing
RNA
(suggestions needed!)
ADD: nothing OMIT: nothing
DNA
(suggestions needed!)
ADD: nothing OMIT: nothing
Conjugation
(suggestions needed!)
ADD: nothing OMIT: nothing