1ygw

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[[Image:1ygw.jpg|left|200px]]<br /><applet load="1ygw" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1ygw" />
 
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'''NMR STRUCTURE OF RIBONUCLEASE T1, 34 STRUCTURES'''<br />
 
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==Overview==
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==NMR STRUCTURE OF RIBONUCLEASE T1, 34 STRUCTURES==
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Limits of NMR structure determination using multidimensional NMR, spectroscopy, variable target function calculations and relaxation matrix, analysis were explored using the model protein ribonuclease T1 (RNase T1)., The enzyme consists of 104 amino acid residues and has a molecular mass of, approximately 11 kDa. Primary experimental data comprise 1856 assigned NOE, intensities, 493 3J coupling constants and 62 values of amid proton, exchange rates. From these data, 2580 distance bounds, 168 allowed ranges, for torsional angles and stereospecific assignments for 75% of, beta-methylene protons as well as for 80% of diastereotopic methyl groups, were derived. Whenever possible, the distance restraints were refined in a, relaxation matrix analysis including amid proton exchange data for, improvement of lower distance limits. Description of side-chain, conformations were based on various models of motional averaging of 3J, coupling constants. The final structure ensemble was selected from the, starting ensemble comparing the global precision of structures with order, parameters derived from 15N relaxation time measurements. Significant, differences between the structure of RNase T1 in solution and in the, crystal became apparent from a comparison of the two highly resolved, structures.
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<StructureSection load='1ygw' size='340' side='right'caption='[[1ygw]]' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1ygw]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aspergillus_oryzae Aspergillus oryzae]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YGW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YGW 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">Solution NMR, 34 models</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=1ygw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ygw OCA], [https://pdbe.org/1ygw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ygw RCSB], [https://www.ebi.ac.uk/pdbsum/1ygw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ygw ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/RNT1_ASPOR RNT1_ASPOR]
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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/yg/1ygw_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=1ygw 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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Limits of NMR structure determination using multidimensional NMR spectroscopy, variable target function calculations and relaxation matrix analysis were explored using the model protein ribonuclease T1 (RNase T1). The enzyme consists of 104 amino acid residues and has a molecular mass of approximately 11 kDa. Primary experimental data comprise 1856 assigned NOE intensities, 493 3J coupling constants and 62 values of amid proton exchange rates. From these data, 2580 distance bounds, 168 allowed ranges for torsional angles and stereospecific assignments for 75% of beta-methylene protons as well as for 80% of diastereotopic methyl groups were derived. Whenever possible, the distance restraints were refined in a relaxation matrix analysis including amid proton exchange data for improvement of lower distance limits. Description of side-chain conformations were based on various models of motional averaging of 3J coupling constants. The final structure ensemble was selected from the starting ensemble comparing the global precision of structures with order parameters derived from 15N relaxation time measurements. Significant differences between the structure of RNase T1 in solution and in the crystal became apparent from a comparison of the two highly resolved structures.
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==About this Structure==
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Limits of NMR structure determination using variable target function calculations: ribonuclease T1, a case study.,Pfeiffer S, Karimi-Nejad Y, Ruterjans H J Mol Biol. 1997 Feb 21;266(2):400-23. PMID:9047372<ref>PMID:9047372</ref>
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1YGW is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Aspergillus_oryzae Aspergillus oryzae]. Active as [http://en.wikipedia.org/wiki/Ribonuclease_T(1) Ribonuclease T(1)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.27.3 3.1.27.3] Known structural/functional Sites: <scene name='pdbsite=CAT:Catalytic Site'>CAT</scene> and <scene name='pdbsite=REC:Guanine Recognition Site'>REC</scene>. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1YGW 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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Limits of NMR structure determination using variable target function calculations: ribonuclease T1, a case study., Pfeiffer S, Karimi-Nejad Y, Ruterjans H, J Mol Biol. 1997 Feb 21;266(2):400-23. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9047372 9047372]
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</div>
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[[Category: Aspergillus oryzae]]
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<div class="pdbe-citations 1ygw" style="background-color:#fffaf0;"></div>
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[[Category: Ribonuclease T(1)]]
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[[Category: Single protein]]
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[[Category: Karimi-Nejad, Y.]]
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[[Category: Pfeiffer, S.]]
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[[Category: Ruterjans, H.]]
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[[Category: endonuclease]]
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[[Category: endoribonuclease]]
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[[Category: hydrolase]]
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[[Category: ribonuclease]]
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[[Category: ribonuclease t1 precursor]]
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[[Category: signal]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Dec 18 18:41:25 2007''
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==See Also==
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*[[Ribonuclease 3D structures|Ribonuclease 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: Aspergillus oryzae]]
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[[Category: Large Structures]]
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[[Category: Karimi-Nejad Y]]
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[[Category: Pfeiffer S]]
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[[Category: Ruterjans H]]

Current revision

NMR STRUCTURE OF RIBONUCLEASE T1, 34 STRUCTURES

PDB ID 1ygw

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