IGEM:MIT/2007/Ideas3
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- 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. 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- Deming TJ. Mussel byssus and biomolecular materials. Curr Opin Chem Biol 1999 Feb; 3(1) 100-5. pmid:10021411.
- Burzio LA and Waite JH. Cross-linking in adhesive quinoproteins: studies with model decapeptides. Biochemistry 2000 Sep 12; 39(36) 11147-53. pmid:10998254.
- 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.
- 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.
- 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.
- Waite JH and Qin X. Polyphosphoprotein from the adhesive pads of Mytilus edulis. Biochemistry 2001 Mar 6; 40(9) 2887-93. pmid:11258900.
- 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.
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. 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
- 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.
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)


