IGEM:MIT/2007/Ideas3

From OpenWetWare

Contents 1 Inbox 1.1 Sticky Proteins 1.2 Metal Pumps and Metal Specific Promoters 1.3 Mussel Protein 1.4 Water Purification Methods 2 Metal Pumps and Metal Specific Promoters 3 Mussel Protein 3.1 KNOWN PEPTIDES/PROTEINS AND CHARACTERISTICS (please update!) 4 Water Purification Methods 5 FhuA 6 New ideas for stickiness from Drew

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

Adhesive Properties of Pla

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

1. Hwang DS, Yoo HJ, Jun JH, Moon WK, and Cha HJ. . pmid:15184131. PubMed HubMed [Hwang04]
2. Hwang DS, Gim Y, and Cha HJ. . pmid:15932281. PubMed HubMed [Hwang05]
3. Hwang DS, Gim Y, Yoo HJ, and Cha HJ. . pmid:17507090. PubMed HubMed [Hwang07]
4. Hwang DS, Gim Y, Kang DG, Kim YK, and Cha HJ. . pmid:16979252. PubMed HubMed [Hwang07a]
5. Lee H, Scherer NF, and Messersmith PB. . pmid:16920796. PubMed HubMed [Lee06]
6. Lin Q, Gourdon D, Sun C, Holten-Andersen N, Anderson TH, Waite JH, and Israelachvili JN. . pmid:17360430. PubMed HubMed [Lin07]
7. Wang J, Liu C, Lu X, and Yin M. . pmid:17475323. PubMed HubMed [Wang07]
8. Rice JJ, Schohn A, Bessette PH, Boulware KT, and Daugherty PS. . pmid:16600968. PubMed HubMed [Rice07]
9. Dane KY, Chan LA, Rice JJ, and Daugherty PS. . pmid:16448666. PubMed HubMed [Dane06]
10. Bessette PH, Rice JJ, and Daugherty PS. . pmid:15531628. PubMed HubMed [Bessette04]
11. Etz H, Minh DB, Schellack C, Nagy E, and Meinke A. . pmid:11698382. PubMed HubMed [Etz01]
12. Hall SS, Mitragotri S, and Daugherty PS. . pmid:17469847. PubMed HubMed [Hall07]
13. Samuelson P, Gunneriusson E, Nygren PA, and Ståhl S. . pmid:12039531. PubMed HubMed [Samuelson02]
14. Wernérus H and Ståhl S. . pmid:15035661. PubMed HubMed [Wernerus04]
15. Gebhardt K, Lauvrak V, Babaie E, Eijsink V, and Lindqvist BH. . pmid:9048419. PubMed HubMed [Gebhart96]
16. Kenan DJ, Walsh EB, Meyers SR, O'Toole GA, Carruthers EG, Lee WK, Zauscher S, Prata CA, and Grinstaff MW. . pmid:16873017. PubMed HubMed [Kenan06]
17. Adey NB, Mataragnon AH, Rider JE, Carter JM, and Kay BK. . pmid:7737512. PubMed HubMed [Adey95]
18. Menendez A and Scott JK. . pmid:15620878. PubMed HubMed [Menendez05]
19. Deming TJ. . pmid:10021411. PubMed HubMed [Deming99]
20. Burzio LA and Waite JH. . pmid:10998254. PubMed HubMed [Burzio00]
21. Burzio LO, Burzio VA, Silva T, Burzio LA, and Pardo J. . pmid:9206011. PubMed HubMed [Burzio97]
22. Marumo K and Waite JH. . pmid:3089286. PubMed HubMed [Marumo86]
23. Waite JH. . pmid:6298211. PubMed HubMed [Waite83]
24. Waite JH and Qin X. . pmid:11258900. PubMed HubMed [Waite01]
25. Papov VV, Diamond TV, Biemann K, and Waite JH. . pmid:7650037. PubMed HubMed [Papov95]

All Medline abstracts: PubMed HubMed

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

11. Etz H, Minh DB, Schellack C, Nagy E, and Meinke A. . pmid:11698382. PubMed HubMed [Etz01]
26. Coulton JW, Mason P, and DuBow MS. . pmid:6315686. PubMed HubMed [Coulton83]
27. Ferguson AD, Hofmann E, Coulton JW, Diederichs K, and Welte W. . pmid:9856937. PubMed HubMed [Ferguson91]
28. Moeck GS, Tawa P, Xiang H, Ismail AA, Turnbull JL, and Coulton JW. . pmid:8939430. PubMed HubMed [Moeck96]
29. Moeck GS, Coulton JW, and Postle K. . pmid:9353297. PubMed HubMed [Moeck97]
30. Locher KP, Rees B, Koebnik R, Mitschler A, Moulinier L, Rosenbusch JP, and Moras D. . pmid:9865695. PubMed HubMed [Locher98]
31. Coulton JW, Mason P, Cameron DR, Carmel G, Jean R, and Rode HN. . pmid:3079747. PubMed HubMed [Coulton86]
32. Hashemzadeh-Bonehi L, Mehraein-Ghomi F, Mitsopoulos C, Jacob JP, Hennessey ES, and Broome-Smith JK. . pmid:9822833. PubMed HubMed [Hashemzadeh98]

All Medline abstracts: PubMed HubMed

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)