[Dock-fans] examine possible binding orientations of protein-protein and protein-DNA complexes

[John J. Irwin]

*: *Protein Sci. <javascript:AL_get(this, 'jour', 'Protein Sci.');> 2002
Jun;11(6):1393-408


        Protein-protein docking with multiple residue conformations and
        residue substitutions.

    *Lorber DM*
    </sites/entrez?Db=pubmed&Cmd=Search&Term=%22Lorber%20DM%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus>, *Udo
    MK*
    </sites/entrez?Db=pubmed&Cmd=Search&Term=%22Udo%20MK%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus>, *Shoichet
    BK*
    </sites/entrez?Db=pubmed&Cmd=Search&Term=%22Shoichet%20BK%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus>.







*: *RNA. <javascript:AL_get(this, 'jour', 'RNA.');> 2009
Jun;15(6):1219-30. Epub 2009 Apr 15.
<javascript:PopUpMenu2_Set(Menu19369428);>


        DOCK 6: combining techniques to model RNA-small molecule complexes.

    *Lang PT*
    </sites/entrez?Db=pubmed&Cmd=Search&Term=%22Lang%20PT%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus>, *Brozell
    SR*
    </sites/entrez?Db=pubmed&Cmd=Search&Term=%22Brozell%20SR%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus>, *Mukherjee
    S*
    </sites/entrez?Db=pubmed&Cmd=Search&Term=%22Mukherjee%20S%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus>, *Pettersen
    EF*
    </sites/entrez?Db=pubmed&Cmd=Search&Term=%22Pettersen%20EF%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus>, *Meng
    EC*
    </sites/entrez?Db=pubmed&Cmd=Search&Term=%22Meng%20EC%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus>, *Thomas
    V*
    </sites/entrez?Db=pubmed&Cmd=Search&Term=%22Thomas%20V%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus>, *Rizzo
    RC*
    </sites/entrez?Db=pubmed&Cmd=Search&Term=%22Rizzo%20RC%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus>, *Case
    DA*
    </sites/entrez?Db=pubmed&Cmd=Search&Term=%22Case%20DA%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus>,*James
    TL*
    </sites/entrez?Db=pubmed&Cmd=Search&Term=%22James%20TL%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus>, *Kuntz
    ID*
    </sites/entrez?Db=pubmed&Cmd=Search&Term=%22Kuntz%20ID%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus>.






* *Biopolymers. <javascript:AL_get(this, 'jour', 'Biopolymers.');> 2004
Feb 5;73(2):192-204 <javascript:PopUpMenu2_Set(Menu14755577);>


        Calculation of ligand-nucleic acid binding free energies with
        the generalized-born model in DOCK.

    *Kang X*
    </sites/entrez?Db=pubmed&Cmd=Search&Term=%22Kang%20X%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus>, *Shafer
    RH*
    </sites/entrez?Db=pubmed&Cmd=Search&Term=%22Shafer%20RH%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus>, *Kuntz
    ID*
    </sites/entrez?Db=pubmed&Cmd=Search&Term=%22Kuntz%20ID%22%5BAuthor%5D&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DiscoveryPanel.Pubmed_RVAbstractPlus>.








hope this is useful
John




Haridas Paul wrote:
> Hi,
> Dock manual mentions..
> *1.2. What Can DOCK Do for You *
> *...*
> ......
> ....
> >>>examine possible binding orientations of protein-protein and
> protein-DNA complexes<<<
> Can you mention any review(s) or paper(s) supporting the above.
> With regards.
> h4r1d4s.p4ul at yahoo.com <mailto:h4r1d4s.p4ul at yahoo.com>
>


Haridas Paul wrote:
> Hi,
> Dock manual mentions..
> *1.2. What Can DOCK Do for You *
> *...*
> ......
> ....
> >>>examine possible binding orientations of protein-protein and
> protein-DNA complexes<<<
> Can you mention any review(s) or paper(s) supporting the above.
> With regards.
> h4r1d4s.p4ul at yahoo.com <mailto:h4r1d4s.p4ul at yahoo.com>
>
> ------------------------------------------------------------------------
>
> _______________________________________________
> Dock-fans mailing list
> Dock-fans at docking.org
> http://blur.compbio.ucsf.edu/mailman/listinfo/dock-fans
>   
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