1kh0

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{{Seed}}
 
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[[Image:1kh0.png|left|200px]]
 
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==Accurate Computer Base Design of a New Backbone Conformation in the Second Turn of Protein L==
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The line below this paragraph, containing "STRUCTURE_1kh0", creates the "Structure Box" on the page.
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<StructureSection load='1kh0' size='340' side='right'caption='[[1kh0]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[1kh0]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Finegoldia_magna_ATCC_29328 Finegoldia magna ATCC 29328]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KH0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KH0 FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9&#8491;</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1kh0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kh0 OCA], [https://pdbe.org/1kh0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1kh0 RCSB], [https://www.ebi.ac.uk/pdbsum/1kh0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1kh0 ProSAT]</span></td></tr>
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{{STRUCTURE_1kh0| PDB=1kh0 | SCENE= }}
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/Q51912_FINMA Q51912_FINMA]
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kh/1kh0_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1kh0 ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The rational design of loops and turns is a key step towards creating proteins with new functions. We used a computational design procedure to create new backbone conformations in the second turn of protein L. The Protein Data Bank was searched for alternative turn conformations, and sequences optimal for these turns in the context of protein L were identified using a Monte Carlo search procedure and an energy function that favors close packing. Two variants containing 12 and 14 mutations were found to be as stable as wild-type protein L. The crystal structure of one of the variants has been solved at a resolution of 1.9 A, and the backbone conformation in the second turn is remarkably close to that of the in silico model (1.1 A RMSD) while it differs significantly from that of wild-type protein L (the turn residues are displaced by an average of 7.2 A). The folding rates of the redesigned proteins are greater than that of the wild-type protein and in contrast to wild-type protein L the second beta-turn appears to be formed at the rate limiting step in folding.
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===Accurate Computer Base Design of a New Backbone Conformation in the Second Turn of Protein L===
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Accurate computer-based design of a new backbone conformation in the second turn of protein L.,Kuhlman B, O'Neill JW, Kim DE, Zhang KY, Baker D J Mol Biol. 2002 Jan 18;315(3):471-7. PMID:11786026<ref>PMID:11786026</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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The line below this paragraph, {{ABSTRACT_PUBMED_11786026}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 1kh0" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 11786026 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_11786026}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Finegoldia magna ATCC 29328]]
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1KH0 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Finegoldia_magna Finegoldia magna]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KH0 OCA].
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[[Category: Large Structures]]
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[[Category: Baker D]]
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==Reference==
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[[Category: Kim DE]]
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Accurate computer-based design of a new backbone conformation in the second turn of protein L., Kuhlman B, O'Neill JW, Kim DE, Zhang KY, Baker D, J Mol Biol. 2002 Jan 18;315(3):471-7. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11786026 11786026]
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[[Category: Kuhlman B]]
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[[Category: Finegoldia magna]]
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[[Category: O'Neill JW]]
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[[Category: Single protein]]
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[[Category: Zhang KY]]
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[[Category: Baker, D.]]
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[[Category: Kim, D E.]]
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[[Category: Kuhlman, B.]]
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[[Category: Neill, J W.O.]]
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[[Category: Zhang, K Y.]]
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[[Category: Computational based protein design]]
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[[Category: Extensive amino acid mutations.]]
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[[Category: Protein l b1 domain]]
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[[Category: Type 1' beta turn]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 2 10:19:53 2008''
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Current revision

Accurate Computer Base Design of a New Backbone Conformation in the Second Turn of Protein L

PDB ID 1kh0

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