IGEM:MIT/2007/Links for Bioremediation Project

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(Heavy Metal Binding Proteins/Peptides)
(Sponges)
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===Sponges===
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*Mercury [http://www.jstage.jst.go.jp/article/bbb/71/6/1494/_pdf]
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==Miscellaneous==
==Miscellaneous==

Revision as of 10:48, 6 July 2007

Contents

Protein Surface Display

Error fetching PMID 15035661:
  1. Error fetching PMID 15035661: [Wernerus04]
  • OmpA, OmpB, OmpC Surface proteins
Error fetching PMID 10931321:
  1. Error fetching PMID 10931321: [koebnik00]

OmpX

Error fetching PMID 7836315:
  1. Error fetching PMID 7836315: [Mecsas95]
  2. http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&id=559693 [OmpX]

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

Error fetching PMID 10543834:
  1. Error fetching PMID 10543834: [Xu99]
  2. http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=protein&id=15832358 OmpC Sequence [OmpC]

Sticky Peptides

Polysterene

Kenan

  • Strong Binders >150
    • 17 FFPSSWYSHLGVL
    • 18 FFSFFFPASAWGS

Menendez

  • YTGWETWYSFDPFTHYGGPGSRFDFVHDKSEDPIDRSY [7]
  • QDLDHWSYWSMYSTYPTSPGLVPYSWGYGSPNSHTDKL
  • PWWWVSWVDAGGGSLALPTQPSD
  • WGWPTWWGWTGGDARHPSAPEAH
  • WWDPDIWFGWGGAHPPNLIQPIS
  • GWQSGWEWWIGGGNWTSNTTH
  • IYYPFFVWGNYANGGLLSPGHVYSSNFIPLYMQREVSP
  • SSRLAYDHYFPSWRSYIFPGSNSSYYNNSWPTITMETN
  • RPYLYDPNEWHRYYSYLLPGHSYNVQSWPDGLGKSASR
  • LGFSGWYWQGLYGLGSHDPGFIHEQSPAEVAMEDTEQS
  • QTLIDFHDLHYWGAYYGWPGIYDAESGSQAVRHNMTHT
  • DSWPLRIYSGLSNYYHYFPGSLVYNMMYPSLSRLPKGD
  • HHGAMNRYYTWLWDNSRFPGRSYLLSAPATQPEASISQ
  • TYDYTYDWSGLFWSPFTHPGAHMTTHSPWAGHKPHAET
  • EIHGNLYNWSPLLGYSYFPGISPKHISGEVPPRPSTKV
  • PYWMFYGFDWRGGFPPSHQIMDQ
  • WMQSWYYHWGGGETFPIRRDSGG

  • SRTWVLWIRY [8]
  • 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.

Bibliography

Error fetching PMID 9048419:
Error fetching PMID 16873017:
Error fetching PMID 7737512:
Error fetching PMID 15620878:
  1. Error fetching PMID 7737512: [Adey95]
  2. Error fetching PMID 9048419: [Gebhart96]
  3. Error fetching PMID 16873017: [Kenan06]
  4. Error fetching PMID 15620878: [Menendez05]
All Medline abstracts: PubMed HubMed

Polypyrrole

T59: THRTSTLDYFVI
[11]
Error fetching PMID 15895095:
  1. Error fetching PMID 15895095: [Sanhvi05]

Bioremediation Papers

Heavy Metal Resistance Techniques

Error fetching PMID 10702338:
Error fetching PMID 3056525:
  1. Error fetching PMID 10702338: [Bruins00]
  2. Error fetching PMID 3056525: [Hou88]
All Medline abstracts: PubMed HubMed


Pumps

  • Cadmium(Plasmid pI258 (from S.aureus) cadmium resistance (cadA) gene, complete cds) [14]
  • ZntA(Divalent Metal Transporter)
Error fetching PMID 17326661:
Error fetching PMID 16890908:
Error fetching PMID 12746428:
Error fetching PMID 10660539:
  1. Error fetching PMID 17326661: [Dutta07]
  2. Error fetching PMID 16890908: [Okkeri06]
  3. Error fetching PMID 12746428: [Hou03]
  4. Error fetching PMID 10660539: [Sharma00]
All Medline abstracts: PubMed HubMed


Miscellaneous

  • Arabinose PBAD Promoter[19]
Error fetching PMID 7608087:
  1. Error fetching PMID 7608087: [pBAD33]


Heavy Metals (non e.coli systems)

Other Bacteria

Error fetching PMID 12829276:
Error fetching PMID 17475501:
Error fetching PMID 16294830:
Error fetching PMID 16307789:
  1. Error fetching PMID 12829276: [Mergeay03]
  2. Error fetching PMID 17475501: [Mizuno07]
  3. Error fetching PMID 16294830: [Mehta05]
  4. Error fetching PMID 16307789: [Munoz06]
  5. http://water.usgs.gov/wid/html/bioremed.html [USGS]
All Medline abstracts: PubMed HubMed

Phytoremediation

Error fetching PMID 16028496:
Error fetching PMID 11:
  1. Error fetching PMID 16028496: [Yang05]
  2. Error fetching PMID 11: [Kamnev00]
All Medline abstracts: PubMed HubMed


Heavy Metal Absorption in Plants and Soil

Error fetching PMID 15109722:
Error fetching PMID 14663492:
Error fetching PMID 12119168:
Error fetching PMID 17306392:
Error fetching PMID 17306392:
Error fetching PMID 11092618:
Error fetching PMID 2530602:
  1. Error fetching PMID 15109722: [DeMarco04]
  2. Error fetching PMID 14663492: [Vivas03]
  3. Error fetching PMID 12119168: [Clemes02]
  4. Error fetching PMID 17306392: [Tripathi07]
  5. Error fetching PMID 17306392: [Tripathi07]
  6. Error fetching PMID 11092618: [ick00]
  7. Error fetching PMID 2530602: [Weinberg89]
All Medline abstracts: PubMed HubMed

Biosensors

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