1xrz

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{{Seed}}
 
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[[Image:1xrz.png|left|200px]]
 
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==NMR Structure of a Zinc Finger with Cyclohexanylalanine Substituted for the Central Aromatic Residue==
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The line below this paragraph, containing "STRUCTURE_1xrz", creates the "Structure Box" on the page.
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<StructureSection load='1xrz' size='340' side='right'caption='[[1xrz]]' 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'>[[1xrz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XRZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XRZ 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">Solution NMR, 34 models</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ALC:2-AMINO-3-CYCLOHEXYL-PROPIONIC+ACID'>ALC</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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{{STRUCTURE_1xrz| PDB=1xrz | SCENE= }}
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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=1xrz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xrz OCA], [https://pdbe.org/1xrz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xrz RCSB], [https://www.ebi.ac.uk/pdbsum/1xrz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xrz ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/ZFY_HUMAN ZFY_HUMAN] Probable transcriptional activator. Binds to the consensus sequence 5'-AGGCCY-3'.
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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/xr/1xrz_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=1xrz 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 classical Zn finger contains a phenylalanine at the crux of its three architectural elements: a beta-hairpin, an alpha-helix, and a Zn(2+)-binding site. Surprisingly, phenylalanine is not required for high-affinity Zn2+ binding, but instead contributes to the specification of a precise DNA-binding surface. Substitution of phenylalanine by leucine leads to a floppy but native-like structure whose Zn affinity is maintained by marked entropy-enthalpy compensation (DeltaDeltaH -8.3 kcal/mol and -TDeltaDeltaS 7.7 kcal/mol). Phenylalanine and leucine differ in shape, size, and aromaticity. To distinguish which features correlate with dynamic stability, we have investigated a nonstandard finger containing cyclohexanylalanine at this site. The structure of the nonstandard finger is similar to that of the native domain. The cyclohexanyl ring assumes a chair conformation, and conformational fluctuations characteristic of the leucine variant are damped. Although the nonstandard finger exhibits a lower affinity for Zn2+ than does the native domain (DeltaDeltaG -1.2 kcal/mol), leucine-associated perturbations in enthalpy and entropy are almost completely attenuated (DeltaDeltaH -0.7 kcal/mol and -TDeltaDeltaS -0.5 kcal/mol). Strikingly, global changes in entropy (as inferred from calorimetry) are in each case opposite in sign from changes in configurational entropy (as inferred from NMR). This seeming paradox suggests that enthalpy-entropy compensation is dominated by solvent reorganization rather than nominal molecular properties. Together, these results demonstrate that dynamic and thermodynamic perturbations correlate with formation or repair of a solvated packing defect rather than type of physical interaction (aromatic or aliphatic) within the core.
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===NMR Structure of a Zinc Finger with Cyclohexanylalanine Substituted for the Central Aromatic Residue===
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Solvation and the hidden thermodynamics of a zinc finger probed by nonstandard repair of a protein crevice.,Lachenmann MJ, Ladbury JE, Qian X, Huang K, Singh R, Weiss MA Protein Sci. 2004 Dec;13(12):3115-26. PMID:15557258<ref>PMID:15557258</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_15557258}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 1xrz" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 15557258 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_15557258}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Homo sapiens]]
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1XRZ is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XRZ OCA].
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[[Category: Large Structures]]
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[[Category: Huang K]]
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==Reference==
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[[Category: Lachenmann MJ]]
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<ref group="xtra">PMID:15557258</ref><references group="xtra"/>
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[[Category: Ladbury JE]]
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[[Category: Huang, K.]]
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[[Category: Qian X]]
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[[Category: Lachenmann, M J.]]
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[[Category: Singh R]]
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[[Category: Ladbury, J E.]]
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[[Category: Weiss MA]]
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[[Category: Qian, X.]]
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[[Category: Singh, R.]]
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[[Category: Weiss, M A.]]
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[[Category: Cyclohexanylalanine]]
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[[Category: Zinc finger]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 10:37:22 2009''
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Current revision

NMR Structure of a Zinc Finger with Cyclohexanylalanine Substituted for the Central Aromatic Residue

PDB ID 1xrz

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