Eric Martz's Favorites
From Proteopedia
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*1995-1997: [[Recoverin, a calcium-activated myristoyl switch]]. Calcium induces this protein to undergo a huge conformational change, literally turning one domain inside out. The N-terminal myristic acid goes from being buried within the hydrophobic core of a protein domain to being exposed, facilitating the attachment of this enzyme to disc membranes in rod cells in the eye. [[Morphs]] of this transition are [[Recoverin, a calcium-activated myristoyl switch|shown]]. | *1995-1997: [[Recoverin, a calcium-activated myristoyl switch]]. Calcium induces this protein to undergo a huge conformational change, literally turning one domain inside out. The N-terminal myristic acid goes from being buried within the hydrophobic core of a protein domain to being exposed, facilitating the attachment of this enzyme to disc membranes in rod cells in the eye. [[Morphs]] of this transition are [[Recoverin, a calcium-activated myristoyl switch|shown]]. | ||
| - | * 2004 - [[Lac repressor]] binding to DNA | + | * 2004 - [[Lac repressor]] binding to DNA stabilizes a kink in the operator, due to sequence-specific [[hydrogen bonds|hydrogen bonding]] opening the minor groove of the DNA. The solution of non-specific binding in 2004 ([[1osl]]) made possible a [[Lac repressor|morph of the DNA bending during specific recognition by lac repressor]]. |
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| + | * 2004 - [[The Bacterial Flagellar Hook]], a molecular universal joint. | ||
* 2006 - '''Tamiflu bound to avian influenza neuraminidase N1''', [[2hu4]] has tamiflu bound, while [[2hty]] lacks this ligand. Tamiflu was designed for N2/N9, not N1. Its antiviral activity via N1 is fortunate but surprising. Comparison of these two structures shows that tamiflu pulls N1 loop 147-152 into close contact, a case of "induced fit". Another surprise was a cavity near tamiflu that could serve as a target for designing better anti-avian influenza drugs. | * 2006 - '''Tamiflu bound to avian influenza neuraminidase N1''', [[2hu4]] has tamiflu bound, while [[2hty]] lacks this ligand. Tamiflu was designed for N2/N9, not N1. Its antiviral activity via N1 is fortunate but surprising. Comparison of these two structures shows that tamiflu pulls N1 loop 147-152 into close contact, a case of "induced fit". Another surprise was a cavity near tamiflu that could serve as a target for designing better anti-avian influenza drugs. | ||
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** [http://www.umass.edu/molvis/martz/lectures/labmolgen/index.htm Lesson plan on this topic]. | ** [http://www.umass.edu/molvis/martz/lectures/labmolgen/index.htm Lesson plan on this topic]. | ||
| - | To be added: MHC class I; domain-switched antibody | + | To be added: MHC class I; domain-switched antibody. |
==See Also== | ==See Also== | ||
* [http://atlas.molviz.org Atlas of Macromolecules] -- an arbitrary list of beautiful, amazing, interesting and high-impact structures gathered by [[User:Eric Martz]]. It includes ''Magnificant Molecular Machines'', ''Unusual Tertiary and Quaternary Structures'', and over a dozen other categories containing over 150 PDB entries. Each structure is liked for further exploration in Proteopedia, FirstGlance in Jmol, and Protein Explorer. | * [http://atlas.molviz.org Atlas of Macromolecules] -- an arbitrary list of beautiful, amazing, interesting and high-impact structures gathered by [[User:Eric Martz]]. It includes ''Magnificant Molecular Machines'', ''Unusual Tertiary and Quaternary Structures'', and over a dozen other categories containing over 150 PDB entries. Each structure is liked for further exploration in Proteopedia, FirstGlance in Jmol, and Protein Explorer. | ||
*[[Highest impact structures]] which includes ''Structures saving the most lives''. | *[[Highest impact structures]] which includes ''Structures saving the most lives''. | ||
Revision as of 16:37, 22 March 2012
Eric Martz's Favorites
- 1995-1997: Recoverin, a calcium-activated myristoyl switch. Calcium induces this protein to undergo a huge conformational change, literally turning one domain inside out. The N-terminal myristic acid goes from being buried within the hydrophobic core of a protein domain to being exposed, facilitating the attachment of this enzyme to disc membranes in rod cells in the eye. Morphs of this transition are shown.
- 2004 - Lac repressor binding to DNA stabilizes a kink in the operator, due to sequence-specific hydrogen bonding opening the minor groove of the DNA. The solution of non-specific binding in 2004 (1osl) made possible a morph of the DNA bending during specific recognition by lac repressor.
- 2004 - The Bacterial Flagellar Hook, a molecular universal joint.
- 2006 - Tamiflu bound to avian influenza neuraminidase N1, 2hu4 has tamiflu bound, while 2hty lacks this ligand. Tamiflu was designed for N2/N9, not N1. Its antiviral activity via N1 is fortunate but surprising. Comparison of these two structures shows that tamiflu pulls N1 loop 147-152 into close contact, a case of "induced fit". Another surprise was a cavity near tamiflu that could serve as a target for designing better anti-avian influenza drugs.
- For the full story, please see Avian Influenza Neuraminidase, Tamiflu and Relenza which includes a morph of the induced fit, and visualization of the cavity..
- Background slides for a lecture.
- Lesson plan on this topic.
To be added: MHC class I; domain-switched antibody.
See Also
- Atlas of Macromolecules -- an arbitrary list of beautiful, amazing, interesting and high-impact structures gathered by User:Eric Martz. It includes Magnificant Molecular Machines, Unusual Tertiary and Quaternary Structures, and over a dozen other categories containing over 150 PDB entries. Each structure is liked for further exploration in Proteopedia, FirstGlance in Jmol, and Protein Explorer.
- Highest impact structures which includes Structures saving the most lives.
