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1ymz

From Proteopedia

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CC45, An Artificial WW Domain Designed Using Statistical Coupling Analysis

Structural highlights

1ymz is a 1 chain structure. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	Solution NMR
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

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.

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^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Socolich M, Lockless SW, Russ WP, Lee H, Gardner KH, Ranganathan R. Evolutionary information for specifying a protein fold. Nature. 2005 Sep 22;437(7058):512-8. PMID:16177782 doi:10.1038/nature03991

1 Structural highlights
2 Evolutionary Conservation
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1ymz"

@@ Line 1: / Line 1: @@
 ==CC45, An Artificial WW Domain Designed Using Statistical Coupling Analysis==
-<StructureSection load='1ymz' size='340' side='right' caption='[[1ymz]], [[NMR_Ensembles_of_Models | 10 NMR models]]' scene=''>
+<StructureSection load='1ymz' size='340' side='right'caption='[[1ymz]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1ymz]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YMZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YMZ FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1ymz]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YMZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YMZ FirstGlance]. <br>
-</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ymz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ymz OCA], [http://pdbe.org/1ymz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1ymz RCSB], [http://www.ebi.ac.uk/pdbsum/1ymz PDBsum]</span></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ymz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ymz OCA], [https://pdbe.org/1ymz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ymz RCSB], [https://www.ebi.ac.uk/pdbsum/1ymz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ymz ProSAT]</span></td></tr>
 </table>
 == Evolutionary Conservation ==
@@ Line 9: / Line 11: @@
 Check<jmol>
   <jmolCheckbox>
-    <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ym/1ymz_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ym/1ymz_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
@@ Line 28: / Line 30: @@
 __TOC__
 </StructureSection>
-[[Category: Gardner, K H]]
+[[Category: Large Structures]]
-[[Category: Lee, H]]
+[[Category: Gardner KH]]
-[[Category: Lockless, S W]]
+[[Category: Lee H]]
-[[Category: Ranganathan, R]]
+[[Category: Lockless SW]]
-[[Category: Russ, W P]]
+[[Category: Ranganathan R]]
-[[Category: Socolich, M]]
+[[Category: Russ WP]]
-[[Category: Artificial protein]]
+[[Category: Socolich M]]
-[[Category: Computational design]]
-[[Category: Unknown function]]

1ymz

From Proteopedia

Current revision

CC45, An Artificial WW Domain Designed Using Statistical Coupling Analysis

Structural highlights

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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