IGEM:MIT/2007/Links for Bioremediation Project

Protein Surface Display

 * 1) Wernerus04 pmid=15035661
 * OmpA, OmpB, OmpC Surface proteins
 * 1) koebnik00 pmid=10931321

OmpX

 * 1) Mecsas95 pmid=7836315
 * 2) OmpX http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&id=559693

CPX

 * Total length is 558 bp + length of passenger peptide
 * 1) Native SS - 69 bp MKKIACLSALAAVLAFTAGTSVA
 * 2) Embedded SfiI restriction site - 15 bp GQSGQ
 * 3) Passenger Peptide XXXXXXXXXXXXXX
 * 4) Sequence - 18 bp GGQSGQ
 * 5) S54-F148 - 285 bp SGDYNKNQYYGITAGPAYRINDWASIYGVVGVGYGKFQTTEYPTYKHDTSDYGFSYGAGLQFNPMENVALDFSYEQSRIRSVDVGTWIAGVGYRF
 * 6) Join native C and N - 12 bp GGSG
 * 7) A1-S53 - 159 bp ATSTVTGGYAQSDAQGQMNKMGGFNLKYRYEEDNSPLGVIGSFTYTEKSRTAS

OmpC

 * 1) Xu99 pmid=10543834
 * 2) OmpC http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=protein&id=15832358 OmpC Sequence

Kenan

 * Strong Binders	>150
 * 17	FFPSSWYSHLGVL
 * 18	FFSFFFPASAWGS

Menendez
-
 * YTGWETWYSFDPFTHYGGPGSRFDFVHDKSEDPIDRSY	 Adey95
 * QDLDHWSYWSMYSTYPTSPGLVPYSWGYGSPNSHTDKL
 * PWWWVSWVDAGGGSLALPTQPSD
 * WGWPTWWGWTGGDARHPSAPEAH
 * WWDPDIWFGWGGAHPPNLIQPIS
 * GWQSGWEWWIGGGNWTSNTTH
 * IYYPFFVWGNYANGGLLSPGHVYSSNFIPLYMQREVSP
 * SSRLAYDHYFPSWRSYIFPGSNSSYYNNSWPTITMETN
 * RPYLYDPNEWHRYYSYLLPGHSYNVQSWPDGLGKSASR
 * LGFSGWYWQGLYGLGSHDPGFIHEQSPAEVAMEDTEQS
 * QTLIDFHDLHYWGAYYGWPGIYDAESGSQAVRHNMTHT
 * DSWPLRIYSGLSNYYHYFPGSLVYNMMYPSLSRLPKGD
 * HHGAMNRYYTWLWDNSRFPGRSYLLSAPATQPEASISQ
 * TYDYTYDWSGLFWSPFTHPGAHMTTHSPWAGHKPHAET
 * EIHGNLYNWSPLLGYSYFPGISPKHISGEVPPRPSTKV
 * PYWMFYGFDWRGGFPPSHQIMDQ
 * WMQSWYYHWGGGETFPIRRDSGG
 * SRTWVLWIRY   Gebhart96
 * LSAWARWGSS
 * SRGFWLVWEQ
 * TWTLWFASMS
 * VDWVGWGASW
 * WVEWRRGWLS
 * PWNAWGRTWV
 * GGWAMWGRVW
 * WMRWGRSWGR
 * GSWKEWGGAW
 * SAWVRWGRVW
 * WSAWVGDWAL
 * GVIHWRAWGGDW
 * LNWRGGWNWF
 * WRLGFARWIG
 * WGYVFHGWNL
 * CCWGYGGSLV
 * VYRVIWFVGR
 * FHAFHAWSAA
 * GSVWWQAHVDR
 * LWGGLYGIWM
 * MWGMHWAEGW
 * FLPYARWFSR
 * VIYYFLVMFM
 * VCFVMFSMCR
 * RPVAGDHPGS

- - -
 * FHENWPS
 * FHWTWYW
 * WHRWPWLVSG
 * WHWWYWALDR
 * APFYYSWFPSYMAEGLPSPSPLDPVQDNLY


 * Notes:
 * Fixed residues at the N and C terminus of the peptides are not shown, fixed amino acids within the sequences are double-underlined.
 * Unpublished results, plate binding confirmed by ELISA.

Polypyrrole
T59: THRTSTLDYFVI Sanhvi05


 * 1) Sanhvi05 pmid=15895095

pBAD Promoter Info

 * Arabinose PBAD Promoter pBAD33
 * 1) pBAD33 pmid=7608087

Pumps

 * Cadmium(Plasmid pI258 (from S.aureus) cadmium resistance (cadA) gene, complete cds) Wang95
 * ZntA(Divalent Metal Transporter)
 * 1) Dutta07 pmid=17326661
 * 2) Okkeri06 pmid=16890908
 * 3) Hou03 pmid=12746428
 * 4) Sharma00 pmid=10660539

Other Bacteria

 * 1) Mergeay03 pmid=12829276
 * 2) Mizuno07 pmid=17475501
 * 3) Mehta05 pmid=16294830
 * 4) Munoz06 pmid=16307789
 * 5) USGS http://water.usgs.gov/wid/html/bioremed.html

Phytoremediation
092247
 * 1) Yang05 pmid=16028496
 * 2) Kamnev00 pmid=11

Heavy Metal Absorption in Plants and Soil

 * 1) DeMarco04 pmid=15109722
 * 2) Vivas03 pmid=14663492
 * 3) Clemes02 pmid=12119168
 * 4) Tripathi07 pmid=17306392
 * 5) Tripathi07 pmid=17306392
 * 6) ick00 pmid=11092618
 * 7) Weinberg89 pmid=2530602

Biosensors

 * 1) Paul05 pmid=15734556
 * Using overexpression and purification of proteins for biosensor
 * 1) Bontidean98 http://pubs.acs.org/cgi-bin/article.cgi/ancham/1998/70/i19/html/ac9803636.html