1ymz
From Proteopedia
(New page: 200px<br /><applet load="1ymz" size="450" color="white" frame="true" align="right" spinBox="true" caption="1ymz" /> '''CC45, An Artificial WW Domain Designed Using...) |
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| - | [[Image:1ymz.gif|left|200px]]<br /><applet load="1ymz" size=" | + | [[Image:1ymz.gif|left|200px]]<br /><applet load="1ymz" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1ymz" /> | caption="1ymz" /> | ||
'''CC45, An Artificial WW Domain Designed Using Statistical Coupling Analysis'''<br /> | '''CC45, An Artificial WW Domain Designed Using Statistical Coupling Analysis'''<br /> | ||
==Overview== | ==Overview== | ||
| - | Classical studies show that for many proteins, the information required | + | Classical studies show that for many proteins, the information required for specifying the tertiary structure is contained in the amino acid sequence. Here, we attempt to define the sequence rules for specifying a protein fold by computationally creating artificial protein sequences using only statistical information encoded in a multiple sequence alignment and no tertiary structure information. Experimental testing of libraries of artificial WW domain sequences shows that a simple statistical energy function capturing coevolution between amino acid residues is necessary and sufficient to specify sequences that fold into native structures. The artificial proteins show thermodynamic stabilities similar to natural WW domains, and structure determination of one artificial protein shows excellent agreement with the WW fold at atomic resolution. The relative simplicity of the information used for creating sequences suggests a marked reduction to the potential complexity of the protein-folding problem. |
==About this Structure== | ==About this Structure== | ||
| - | 1YMZ is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http:// | + | 1YMZ is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YMZ OCA]. |
==Reference== | ==Reference== | ||
Evolutionary information for specifying a protein fold., Socolich M, Lockless SW, Russ WP, Lee H, Gardner KH, Ranganathan R, Nature. 2005 Sep 22;437(7058):512-8. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16177782 16177782] | Evolutionary information for specifying a protein fold., Socolich M, Lockless SW, Russ WP, Lee H, Gardner KH, Ranganathan R, Nature. 2005 Sep 22;437(7058):512-8. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16177782 16177782] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
| - | [[Category: Gardner, K | + | [[Category: Gardner, K H.]] |
[[Category: Lee, H.]] | [[Category: Lee, H.]] | ||
| - | [[Category: Lockless, S | + | [[Category: Lockless, S W.]] |
[[Category: Ranganathan, R.]] | [[Category: Ranganathan, R.]] | ||
| - | [[Category: Russ, W | + | [[Category: Russ, W P.]] |
[[Category: Socolich, M.]] | [[Category: Socolich, M.]] | ||
[[Category: artificial protein]] | [[Category: artificial protein]] | ||
[[Category: computational design]] | [[Category: computational design]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:07:03 2008'' |
Revision as of 14:07, 21 February 2008
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CC45, An Artificial WW Domain Designed Using Statistical Coupling Analysis
Overview
Classical studies show that for many proteins, the information required for specifying the tertiary structure is contained in the amino acid sequence. Here, we attempt to define the sequence rules for specifying a protein fold by computationally creating artificial protein sequences using only statistical information encoded in a multiple sequence alignment and no tertiary structure information. Experimental testing of libraries of artificial WW domain sequences shows that a simple statistical energy function capturing coevolution between amino acid residues is necessary and sufficient to specify sequences that fold into native structures. The artificial proteins show thermodynamic stabilities similar to natural WW domains, and structure determination of one artificial protein shows excellent agreement with the WW fold at atomic resolution. The relative simplicity of the information used for creating sequences suggests a marked reduction to the potential complexity of the protein-folding problem.
About this Structure
1YMZ is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Evolutionary information for specifying a protein fold., Socolich M, Lockless SW, Russ WP, Lee H, Gardner KH, Ranganathan R, Nature. 2005 Sep 22;437(7058):512-8. PMID:16177782
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