IGEM:MIT/2007/Ideas3
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(→KNOWN PEPTIDES/PROTEINS AND CHARACTERISTICS (please update!)) |
Current revision (00:28, 25 June 2007) (view source) |
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*Put Links and Papers you find for another category here | *Put Links and Papers you find for another category here | ||
*Put your initials next to a link if you're in the process of analyzing it | *Put your initials next to a link if you're in the process of analyzing it | ||
| + | |||
| + | ===Sticky Proteins=== | ||
| + | [http://www.ncbi.nlm.nih.gov/sites/entrez?Db=pubmed&Cmd=ShowDetailView&TermToSearch=16923070&ordinalpos=12&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_RVDocSum Adhesive Properties of Pla] | ||
===Metal Pumps and Metal Specific Promoters=== | ===Metal Pumps and Metal Specific Promoters=== | ||
| - | + | Arsenic binding | |
===Mussel Protein=== | ===Mussel Protein=== | ||
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===Water Purification Methods=== | ===Water Purification Methods=== | ||
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==Metal Pumps and Metal Specific Promoters== | ==Metal Pumps and Metal Specific Promoters== | ||
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***Has a 30% DOPA level, which no other foot protein comes close to | ***Has a 30% DOPA level, which no other foot protein comes close to | ||
***From M. galloprovincialis; Very adhesive; Low purification yield (but this last fact may not matter for us?) | ***From M. galloprovincialis; Very adhesive; Low purification yield (but this last fact may not matter for us?) | ||
| + | |||
| + | *fp-151 | ||
| + | **Hwang, et al 2007 | ||
| + | ** fp-5 flanked by six decapeptide repeats from fp-1 AGK | ||
| + | *** [http://www.biolbull.org/cgi/reprint/190/2/213?view=long&pmid=8652732 | fp-1 sequence: Ala-Lys-Pro-Ser-Tyr-diHyp-Hyp-Thr-DOPA-Lys] | ||
| + | *** diHyp = 3,4 Dihydroxyproline; Hyp= 4 hydroxyproline | ||
| + | **Positives AGK | ||
| + | *** Purifies more easily than fp-5 | ||
| + | *** Not harmful to cells | ||
*Mgfp-1 | *Mgfp-1 | ||
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** | ** | ||
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*Mefp-1 | *Mefp-1 | ||
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==Water Purification Methods== | ==Water Purification Methods== | ||
| - | + | ==FhuA== | |
| - | == | + | |
<biblio> | <biblio> | ||
| - | # | + | #Coulton83 pmid=6315686 |
| + | #Etz01 pmid=11698382 | ||
| + | #Ferguson91 pmid=9856937 | ||
| + | #Moeck96 pmid=8939430 | ||
| + | #Moeck97 pmid=9353297 | ||
| + | #Locher98 pmid=9865695 | ||
| + | #Coulton86 pmid=3079747 | ||
| + | #Hashemzadeh98 pmid=9822833 | ||
</biblio> | </biblio> | ||
| - | |||
| - | == | + | ==New ideas for stickiness from Drew== |
| - | + | NEW IDEAS: | |
| - | + | how do we use conditional stickiness??? | |
| - | + | ||
| - | + | ||
| - | + | ||
| - | + | ||
| - | + | ||
| - | + | ||
| - | + | *baby machines??? but reason for it? applications? | |
| - | + | *yeast surface attachement | |
| - | + | *coli background -- non-sticky / non-biofilm forming (indole deficient) | |
| - | + | *attacking diseased cells: low oxygen-induced stickiness | |
| - | + | **quorum sensing stickiness | |
| - | + | **cancer surface markers | |
| - | + | ||
| - | + | *contact: roy curtis (arizona state) -- salmonella as vaccine platform (have you ever wanted salmonella to stick to things) | |
| + | |||
| + | *stickiness as amplifier of rare phenotypes | ||
| + | |||
| + | *fuel cell (zinc binding) | ||
| + | *magnetotactic | ||
| + | |||
| + | *geobacter (metal pilus -- iron oxide) | ||
| + | *benign (neutral) biocoating for medical grade stuff | ||
| + | *self-assembling bacteria (form 3d structure) | ||
| + | *micron scale assembly (M13 phage factories...) | ||
| + | *spatial polarity? (bacteria -- old poles and new poles!) markers? | ||
| + | **yeast-- bud scar? | ||
| + | **M13 easy | ||
| + | |||
| + | *photogluing: 3D printing (what to use for?) | ||
| + | *checkpoint driven stickiness: (cell cycle synchronization) | ||
| + | *sticks to arterial plaque and eats it :) | ||
| + | *competant bacteria (snarfs up and integrates environmental DNA) | ||
Current revision
Contents |
Inbox
- Put Links and Papers you find for another category here
- Put your initials next to a link if you're in the process of analyzing it
Sticky Proteins
Metal Pumps and Metal Specific Promoters
Arsenic binding
Mussel Protein
Expressing proteins on E coli cell membranes
Water Purification Methods
Metal Pumps and Metal Specific Promoters
Mussel Protein
- Hwang DS, Yoo HJ, Jun JH, Moon WK, and Cha HJ. . pmid:15184131.
- Hwang DS, Gim Y, and Cha HJ. . pmid:15932281.
- Hwang DS, Gim Y, Yoo HJ, and Cha HJ. . pmid:17507090.
- Hwang DS, Gim Y, Kang DG, Kim YK, and Cha HJ. . pmid:16979252.
- Lee H, Scherer NF, and Messersmith PB. . pmid:16920796.
- Lin Q, Gourdon D, Sun C, Holten-Andersen N, Anderson TH, Waite JH, and Israelachvili JN. . pmid:17360430.
- Wang J, Liu C, Lu X, and Yin M. . pmid:17475323.
- Rice JJ, Schohn A, Bessette PH, Boulware KT, and Daugherty PS. . pmid:16600968.
- Dane KY, Chan LA, Rice JJ, and Daugherty PS. . pmid:16448666.
- Bessette PH, Rice JJ, and Daugherty PS. . pmid:15531628.
- Etz H, Minh DB, Schellack C, Nagy E, and Meinke A. . pmid:11698382.
- Hall SS, Mitragotri S, and Daugherty PS. . pmid:17469847.
- Samuelson P, Gunneriusson E, Nygren PA, and Ståhl S. . pmid:12039531.
- Wernérus H and Ståhl S. . pmid:15035661.
- Gebhardt K, Lauvrak V, Babaie E, Eijsink V, and Lindqvist BH. . pmid:9048419.
- Kenan DJ, Walsh EB, Meyers SR, O'Toole GA, Carruthers EG, Lee WK, Zauscher S, Prata CA, and Grinstaff MW. . pmid:16873017.
- Adey NB, Mataragnon AH, Rider JE, Carter JM, and Kay BK. . pmid:7737512.
- Menendez A and Scott JK. . pmid:15620878.
- Deming TJ. . pmid:10021411.
- Burzio LA and Waite JH. . pmid:10998254.
- Burzio LO, Burzio VA, Silva T, Burzio LA, and Pardo J. . pmid:9206011.
- Marumo K and Waite JH. . pmid:3089286.
- Waite JH. . pmid:6298211.
- Waite JH and Qin X. . pmid:11258900.
- Papov VV, Diamond TV, Biemann K, and Waite JH. . pmid:7650037.
Mgfp-5 Amino Acid Sequence
1 sseeykggyy pgntyhyhsg gsyhgsgyhg gykgkyygka kkyyykykns gkykylkkar 61 kyhrkgykky ygggss
/lue
6.20.07
KNOWN PEPTIDES/PROTEINS AND CHARACTERISTICS (please update!)
- Name of peptide/protein
- Paper/Reference
- Length in amino acids
- Obstacles for synthesis?
- Relevant characteristics/Other pertinent information
+ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
- Mgfp-5/Mefp-5
- Hwang, et al
- 75 aa
- Obstacles AGK
- "However, these attempts have failed to express functional and economical mussel adhesive proteins for several reasons, including a highly biased amino acid composition (5 amino acid types comprised �89% of the total amino acids), different codon usage preference between mussel and other expression systems (tRNA utilization problem), and small amount of adhesive produced" - Hwang
- Presence of fp-5 has adverse effects on cell growth.
- Positives AGK
- Known sequence
- Very adhesive
- Has a 30% DOPA level, which no other foot protein comes close to
- From M. galloprovincialis; Very adhesive; Low purification yield (but this last fact may not matter for us?)
- fp-151
- Hwang, et al 2007
- fp-5 flanked by six decapeptide repeats from fp-1 AGK
- | fp-1 sequence: Ala-Lys-Pro-Ser-Tyr-diHyp-Hyp-Thr-DOPA-Lys
- diHyp = 3,4 Dihydroxyproline; Hyp= 4 hydroxyproline
- Positives AGK
- Purifies more easily than fp-5
- Not harmful to cells
- Mgfp-1
- Hwang, et al
- … aa
- Mgfp-3
- Hwang, et al
- … aa
- Mefp-1
- Hwang, et al
- 10 aa ?
- Not very adhesive
- Mefp-5
- Mefp-1
Water Purification Methods
FhuA
- Etz H, Minh DB, Schellack C, Nagy E, and Meinke A. . pmid:11698382.
- Coulton JW, Mason P, and DuBow MS. . pmid:6315686.
- Ferguson AD, Hofmann E, Coulton JW, Diederichs K, and Welte W. . pmid:9856937.
- Moeck GS, Tawa P, Xiang H, Ismail AA, Turnbull JL, and Coulton JW. . pmid:8939430.
- Moeck GS, Coulton JW, and Postle K. . pmid:9353297.
- Locher KP, Rees B, Koebnik R, Mitschler A, Moulinier L, Rosenbusch JP, and Moras D. . pmid:9865695.
- Coulton JW, Mason P, Cameron DR, Carmel G, Jean R, and Rode HN. . pmid:3079747.
- Hashemzadeh-Bonehi L, Mehraein-Ghomi F, Mitsopoulos C, Jacob JP, Hennessey ES, and Broome-Smith JK. . pmid:9822833.
New ideas for stickiness from Drew
NEW IDEAS: how do we use conditional stickiness???
- baby machines??? but reason for it? applications?
- yeast surface attachement
- coli background -- non-sticky / non-biofilm forming (indole deficient)
- attacking diseased cells: low oxygen-induced stickiness
- quorum sensing stickiness
- cancer surface markers
- contact: roy curtis (arizona state) -- salmonella as vaccine platform (have you ever wanted salmonella to stick to things)
- stickiness as amplifier of rare phenotypes
- fuel cell (zinc binding)
- magnetotactic
- geobacter (metal pilus -- iron oxide)
- benign (neutral) biocoating for medical grade stuff
- self-assembling bacteria (form 3d structure)
- micron scale assembly (M13 phage factories...)
- spatial polarity? (bacteria -- old poles and new poles!) markers?
- yeast-- bud scar?
- M13 easy
- photogluing: 3D printing (what to use for?)
- checkpoint driven stickiness: (cell cycle synchronization)
- sticks to arterial plaque and eats it :)
- competant bacteria (snarfs up and integrates environmental DNA)
