2lzt

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(New page: 200px<br /><applet load="2lzt" size="450" color="white" frame="true" align="right" spinBox="true" caption="2lzt, resolution 1.97&Aring;" /> '''REFINEMENT OF TRICLI...)
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[[Image:2lzt.jpg|left|200px]]<br /><applet load="2lzt" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="2lzt, resolution 1.97&Aring;" />
 
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'''REFINEMENT OF TRICLINIC LYSOZYME. II. THE METHOD OF STEREOCHEMICALLY RESTRAINED LEAST-SQUARES'''<br />
 
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==Overview==
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==REFINEMENT OF TRICLINIC LYSOZYME. II. THE METHOD OF STEREOCHEMICALLY RESTRAINED LEAST-SQUARES==
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Refinement of triclinic lysozyme by restrained least squares against the 2, A resolution X-ray data is described, beginning with the model from cycle, 17 of the preceding paper [Hodsdon, Brown, Sieker &amp; Jensen (1990). Acta, Cryst. B46, 54-62]. After 20 refinement cycles, R stood at 0.172., Nevertheless, serious errors involving both main-chain and side-chain, atoms still remained, requiring numerous model rebuilding sessions, interleaved with refinement cycles. After 63 cycles R = 0.124 for the, model which includes all protein atoms, 249 water oxygen sites and five, nitrate ions. Although the overall B is relatively low, 10.5 A2, B's for, atoms in the region of residues 101-103, toward the termini of some of the, longer side chains, and in the region of the C terminus of the main chain, exceed 20 A2, indicating relatively high atomic mobilities, disorder, or, remaining errors in the model.
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<StructureSection load='2lzt' size='340' side='right'caption='[[2lzt]], [[Resolution|resolution]] 1.97&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2lzt]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LZT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2LZT FirstGlance]. <br>
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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]] 1.97&#8491;</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=NO3:NITRATE+ION'>NO3</scene></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=2lzt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2lzt OCA], [https://pdbe.org/2lzt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2lzt RCSB], [https://www.ebi.ac.uk/pdbsum/2lzt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2lzt ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/LYSC_CHICK LYSC_CHICK] Lysozymes have primarily a bacteriolytic function; those in tissues and body fluids are associated with the monocyte-macrophage system and enhance the activity of immunoagents. Has bacteriolytic activity against M.luteus.<ref>PMID:22044478</ref>
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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/lz/2lzt_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=2lzt 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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Refinement of triclinic lysozyme by restrained least squares against the 2 A resolution X-ray data is described, beginning with the model from cycle 17 of the preceding paper [Hodsdon, Brown, Sieker &amp; Jensen (1990). Acta Cryst. B46, 54-62]. After 20 refinement cycles, R stood at 0.172. Nevertheless, serious errors involving both main-chain and side-chain atoms still remained, requiring numerous model rebuilding sessions interleaved with refinement cycles. After 63 cycles R = 0.124 for the model which includes all protein atoms, 249 water oxygen sites and five nitrate ions. Although the overall B is relatively low, 10.5 A2, B's for atoms in the region of residues 101-103, toward the termini of some of the longer side chains, and in the region of the C terminus of the main chain exceed 20 A2, indicating relatively high atomic mobilities, disorder, or remaining errors in the model.
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==About this Structure==
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Refinement of triclinic lysozyme: II. The method of stereochemically restrained least squares.,Ramanadham M, Sieker LC, Jensen LH Acta Crystallogr B. 1990 Feb 1;46 ( Pt 1):63-9. PMID:2302327<ref>PMID:2302327</ref>
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2LZT is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus] with NO3 as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2LZT OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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Refinement of triclinic lysozyme: II. The method of stereochemically restrained least squares., Ramanadham M, Sieker LC, Jensen LH, Acta Crystallogr B. 1990 Feb 1;46 ( Pt 1):63-9. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=2302327 2302327]
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</div>
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[[Category: Gallus gallus]]
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<div class="pdbe-citations 2lzt" style="background-color:#fffaf0;"></div>
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[[Category: Lysozyme]]
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[[Category: Single protein]]
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[[Category: Jensen, L.H.]]
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[[Category: Ramanadham, M.]]
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[[Category: Sieker, L.C.]]
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[[Category: NO3]]
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[[Category: hydrolase(o-glycosyl)]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 12:43:05 2007''
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==See Also==
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*[[Lysozyme 3D structures|Lysozyme 3D structures]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Gallus gallus]]
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[[Category: Large Structures]]
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[[Category: Jensen LH]]
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[[Category: Ramanadham M]]
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[[Category: Sieker LC]]

Current revision

REFINEMENT OF TRICLINIC LYSOZYME. II. THE METHOD OF STEREOCHEMICALLY RESTRAINED LEAST-SQUARES

PDB ID 2lzt

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