• Tips gratefully accepted here. Thanks!:

  • Recent Comments

    bellecat on To impeach or not to impeach,…
    bellecat on To impeach or not to impeach,…
    lililam on To impeach or not to impeach,…
    William on To impeach or not to impeach,…
    Ivory Bill Woodpecke… on To impeach or not to impeach,…
    bellecat on To impeach or not to impeach,…
    HerstoryRepeating on To impeach or not to impeach,…
    peep9 on To impeach or not to impeach,…
    Ivory Bill Woodpecke… on To impeach or not to impeach,…
    Ivory Bill Woodpecke… on To impeach or not to impeach,…
    Propertius on Also…
    bellecat on To impeach or not to impeach,…
    bellecat on To impeach or not to impeach,…
    Catscatscats on To impeach or not to impeach,…
    Kathleen A Wynne on To impeach or not to impeach,…
  • Categories


  • Tags

    abortion Add new tag Afghanistan Al Franken Anglachel Atrios bankers Barack Obama Bernie Sanders big pharma Bill Clinton cocktails Conflucians Say Dailykos Democratic Party Democrats Digby DNC Donald Trump Donna Brazile Economy Elizabeth Warren feminism Florida Fox News General Glenn Beck Glenn Greenwald Goldman Sachs health care Health Care Reform Hillary Clinton Howard Dean John Edwards John McCain Jon Corzine Karl Rove Matt Taibbi Media medicare Michelle Obama Michigan misogyny Mitt Romney Morning Edition Morning News Links Nancy Pelosi New Jersey news NO WE WON'T Obama Obamacare OccupyWallStreet occupy wall street Open thread Paul Krugman Politics Presidential Election 2008 PUMA racism Republicans research Sarah Palin sexism Single Payer snark Social Security Supreme Court Terry Gross Texas Tim Geithner unemployment Wall Street WikiLeaks women
  • Archives

  • History

    April 2019
    S M T W T F S
    « Mar    
     123456
    78910111213
    14151617181920
    21222324252627
    282930  
  • RSS Paul Krugman: Conscience of a Liberal

  • The Confluence

    The Confluence

  • RSS Suburban Guerrilla

    • Hmm
      Devotion to Trump is based on emotional patterns that most people grow out of by age 5.https://t.co/zf39OK34Au— Ironhorse RESISTS (@Ironhorse76) April 21, 2019
  • RSS Ian Welsh

    • Week-end Wrap – Political Economy – April 20, 2019
      This post is by Tony Wikrent I have been looking at the work of Cornell University law professor Robert Hockett, who is serving as an economics adviser to Representative Alexandria Occasio-Cortez. I have been delighted to find that Hockett has been working the same angle I have: applying the classical republicanism that informed the creation of […]
  • Top Posts

  • Advertisements

Ebola Post: Request for papers

Given that the number of cases of ebola in Africa is rising exponentially, and given that ZMapp is not going to be available in sufficient quantities any time soon, is it possible to find/screen for a small drug entity or protein aptamer that would interfere with the oligomerization of ebola matrix proteins or inhibit the action of other ebola virus proteins?

I think the answer is yes.  The RCSB, the publicly available repository of protein structures, has over 40 ebola virus proteins, some deposited this year.  I have to assume that someone(s) is screening ACD or other compound databases with docking programs to find potential hits.  It would be great if those of us who used to do this type of work would also be able to contribute.

However, while the structures are available, and much work can be done just using the structures, the papers that are associated with them frequently are not.  The journals involved can charge up to $33/copy for each paper.  This cost is prohibitive for most independent researchers.  Come to think of it, so are the applications I used to use to dock libraries of compounds into structures.  But even with the limited public software, we could still get a lot done if we were able to read the papers for free.  Like I said, reading the structure papers is not absolutely necessary but it can be helpful.

So, if there is anyone out there who has influence with PubMed, could you look into it?   Also, is anyone aware of a crowdsourcing effort to design drugs based on these structures?  Just give a shout out if you know of one.

One more thing: It would be very helpful to know the latest mutation data in FASTA format in case homology models need to be created on currently available crystal structures.  I see that the octamer was crystallized in 2002 and is from strain Zaire Mayinga.  If I’m not mistaken, the current epidemic is from a different strain. (though this protein may be more resistant to mutations?  Dunno.  Need to read the papers.)

Advertisements