IGEM:MIT/2007/Ideas3

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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. Expression of functional recombinant mussel adhesive protein Mgfp-5 in Escherichia coli. Appl Environ Microbiol 2004 Jun; 70(6) 3352-9. doi:10.1128/AEM.70.6.3352-3359.2004 pmid:15184131. PubMed HubMed [Hwang04]
2. Hwang DS, Gim Y, and Cha HJ. Expression of functional recombinant mussel adhesive protein type 3A in Escherichia coli. Biotechnol Prog 2005 May-Jun; 21(3) 965-70. doi:10.1021/bp050014e pmid:15932281. PubMed HubMed [Hwang05]
3. Hwang DS, Gim Y, Yoo HJ, and Cha HJ. Practical recombinant hybrid mussel bioadhesive fp-151. Biomaterials 2007 Aug; 28(24) 3560-8. doi:10.1016/j.biomaterials.2007.04.039 pmid:17507090. PubMed HubMed [Hwang07]
4. Hwang DS, Gim Y, Kang DG, Kim YK, and Cha HJ. Recombinant mussel adhesive protein Mgfp-5 as cell adhesion biomaterial. J Biotechnol 2007 Jan 20; 127(4) 727-35. doi:10.1016/j.jbiotec.2006.08.005 pmid:16979252. PubMed HubMed [Hwang07a]
5. Lee H, Scherer NF, and Messersmith PB. Single-molecule mechanics of mussel adhesion. Proc Natl Acad Sci U S A 2006 Aug 29; 103(35) 12999-3003. doi:10.1073/pnas.0605552103 pmid:16920796. PubMed HubMed [Lee06]
6. Lin Q, Gourdon D, Sun C, Holten-Andersen N, Anderson TH, Waite JH, and Israelachvili JN. Adhesion mechanisms of the mussel foot proteins mfp-1 and mfp-3. Proc Natl Acad Sci U S A 2007 Mar 6; 104(10) 3782-6. doi:10.1073/pnas.0607852104 pmid:17360430. PubMed HubMed [Lin07]
7. Wang J, Liu C, Lu X, and Yin M. Co-polypeptides of 3,4-dihydroxyphenylalanine and L-lysine to mimic marine adhesive protein. Biomaterials 2007 Aug; 28(23) 3456-68. doi:10.1016/j.biomaterials.2007.04.009 pmid:17475323. PubMed HubMed [Wang07]
8. Rice JJ, Schohn A, Bessette PH, Boulware KT, and Daugherty PS. Bacterial display using circularly permuted outer membrane protein OmpX yields high affinity peptide ligands. Protein Sci 2006 Apr; 15(4) 825-36. doi:10.1110/ps.051897806 pmid:16600968. PubMed HubMed [Rice07]
9. Dane KY, Chan LA, Rice JJ, and Daugherty PS. Isolation of cell specific peptide ligands using fluorescent bacterial display libraries. J Immunol Methods 2006 Feb 20; 309(1-2) 120-9. doi:10.1016/j.jim.2005.11.021 pmid:16448666. PubMed HubMed [Dane06]
10. Bessette PH, Rice JJ, and Daugherty PS. Rapid isolation of high-affinity protein binding peptides using bacterial display. Protein Eng Des Sel 2004 Oct; 17(10) 731-9. doi:10.1093/protein/gzh084 pmid:15531628. PubMed HubMed [Bessette04]
11. Etz H, Minh DB, Schellack C, Nagy E, and Meinke A. Bacterial phage receptors, versatile tools for display of polypeptides on the cell surface. J Bacteriol 2001 Dec; 183(23) 6924-35. doi:10.1128/JB.183.23.6924-6935.2001 pmid:11698382. PubMed HubMed [Etz01]
12. Hall SS, Mitragotri S, and Daugherty PS. Identification of peptide ligands facilitating nanoparticle attachment to erythrocytes. Biotechnol Prog 2007 May-Jun; 23(3) 749-54. doi:10.1021/bp060333l pmid:17469847. PubMed HubMed [Hall07]
13. Samuelson P, Gunneriusson E, Nygren PA, and Ståhl S. Display of proteins on bacteria. J Biotechnol 2002 Jun 26; 96(2) 129-54. pmid:12039531. PubMed HubMed [Samuelson02]
14. Wernérus H and Ståhl S. Biotechnological applications for surface-engineered bacteria. Biotechnol Appl Biochem 2004 Dec; 40(Pt 3) 209-28. doi:10.1042/BA20040014 pmid:15035661. PubMed HubMed [Wernerus04]
15. Gebhardt K, Lauvrak V, Babaie E, Eijsink V, and Lindqvist BH. Adhesive peptides selected by phage display: characterization, applications and similarities with fibrinogen. Pept Res 1996 Nov-Dec; 9(6) 269-78. 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. Peptide-PEG amphiphiles as cytophobic coatings for mammalian and bacterial cells. Chem Biol 2006 Jul; 13(7) 695-700. doi:10.1016/j.chembiol.2006.06.013 pmid:16873017. PubMed HubMed [Kenan06]
17. Adey NB, Mataragnon AH, Rider JE, Carter JM, and Kay BK. Characterization of phage that bind plastic from phage-displayed random peptide libraries. Gene 1995 Apr 14; 156(1) 27-31. pmid:7737512. PubMed HubMed [Adey95]
18. Menendez A and Scott JK. The nature of target-unrelated peptides recovered in the screening of phage-displayed random peptide libraries with antibodies. Anal Biochem 2005 Jan 15; 336(2) 145-57. doi:10.1016/j.ab.2004.09.048 pmid:15620878. PubMed HubMed [Menendez05]
19. Deming TJ. Mussel byssus and biomolecular materials. Curr Opin Chem Biol 1999 Feb; 3(1) 100-5. pmid:10021411. PubMed HubMed [Deming99]
20. Burzio LA and Waite JH. Cross-linking in adhesive quinoproteins: studies with model decapeptides. Biochemistry 2000 Sep 12; 39(36) 11147-53. pmid:10998254. PubMed HubMed [Burzio00]
21. Burzio LO, Burzio VA, Silva T, Burzio LA, and Pardo J. Environmental bioadhesion: themes and applications. Curr Opin Biotechnol 1997 Jun; 8(3) 309-12. pmid:9206011. PubMed HubMed [Burzio97]
22. Marumo K and Waite JH. Optimization of hydroxylation of tyrosine and tyrosine-containing peptides by mushroom tyrosinase. Biochim Biophys Acta 1986 Jul 25; 872(1-2) 98-103. pmid:3089286. PubMed HubMed [Marumo86]
23. Waite JH. Evidence for a repeating 3,4-dihydroxyphenylalanine- and hydroxyproline-containing decapeptide in the adhesive protein of the mussel, Mytilus edulis L. J Biol Chem 1983 Mar 10; 258(5) 2911-5. pmid:6298211. PubMed HubMed [Waite83]
24. Waite JH and Qin X. Polyphosphoprotein from the adhesive pads of Mytilus edulis. Biochemistry 2001 Mar 6; 40(9) 2887-93. pmid:11258900. PubMed HubMed [Waite01]
25. Papov VV, Diamond TV, Biemann K, and Waite JH. Hydroxyarginine-containing polyphenolic proteins in the adhesive plaques of the marine mussel Mytilus edulis. J Biol Chem 1995 Aug 25; 270(34) 20183-92. pmid:7650037. PubMed HubMed [Papov95]

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. Bacterial phage receptors, versatile tools for display of polypeptides on the cell surface. J Bacteriol 2001 Dec; 183(23) 6924-35. doi:10.1128/JB.183.23.6924-6935.2001 pmid:11698382. PubMed HubMed [Etz01]
26. Coulton JW, Mason P, and DuBow MS. Molecular cloning of the ferrichrome-iron receptor of Escherichia coli K-12. J Bacteriol 1983 Dec; 156(3) 1315-21. pmid:6315686. PubMed HubMed [Coulton83]
27. Ferguson AD, Hofmann E, Coulton JW, Diederichs K, and Welte W. Siderophore-mediated iron transport: crystal structure of FhuA with bound lipopolysaccharide. Science 1998 Dec 18; 282(5397) 2215-20. pmid:9856937. PubMed HubMed [Ferguson91]
28. Moeck GS, Tawa P, Xiang H, Ismail AA, Turnbull JL, and Coulton JW. Ligand-induced conformational change in the ferrichrome-iron receptor of Escherichia coli K-12. Mol Microbiol 1996 Nov; 22(3) 459-71. pmid:8939430. PubMed HubMed [Moeck96]
29. Moeck GS, Coulton JW, and Postle K. Cell envelope signaling in Escherichia coli. Ligand binding to the ferrichrome-iron receptor fhua promotes interaction with the energy-transducing protein TonB. J Biol Chem 1997 Nov 7; 272(45) 28391-7. pmid:9353297. PubMed HubMed [Moeck97]
30. Locher KP, Rees B, Koebnik R, Mitschler A, Moulinier L, Rosenbusch JP, and Moras D. Transmembrane signaling across the ligand-gated FhuA receptor: crystal structures of free and ferrichrome-bound states reveal allosteric changes. Cell 1998 Dec 11; 95(6) 771-8. pmid:9865695. PubMed HubMed [Locher98]
31. Coulton JW, Mason P, Cameron DR, Carmel G, Jean R, and Rode HN. Protein fusions of beta-galactosidase to the ferrichrome-iron receptor of Escherichia coli K-12. J Bacteriol 1986 Jan; 165(1) 181-92. pmid:3079747. PubMed HubMed [Coulton86]
32. Hashemzadeh-Bonehi L, Mehraein-Ghomi F, Mitsopoulos C, Jacob JP, Hennessey ES, and Broome-Smith JK. Importance of using lac rather than ara promoter vectors for modulating the levels of toxic gene products in Escherichia coli. Mol Microbiol 1998 Nov; 30(3) 676-8. pmid:9822833. PubMed HubMed [Hashemzadeh98]

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)