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1fy4

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(New page: 200px<br /><applet load="1fy4" size="450" color="white" frame="true" align="right" spinBox="true" caption="1fy4, resolution 0.81&Aring;" /> '''FUSARIUM OXYSPORUM T...)
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[[Image:1fy4.jpg|left|200px]]<br /><applet load="1fy4" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1fy4, resolution 0.81&Aring;" />
 
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'''FUSARIUM OXYSPORUM TRYPSIN AT ATOMIC RESOLUTION'''<br />
 
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==Overview==
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==FUSARIUM OXYSPORUM TRYPSIN AT ATOMIC RESOLUTION==
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The X-ray structure of F. oxysporum trypsin has been determined at atomic, resolution, revealing electron density in the binding site which was, interpreted as a peptide bound in the sites S1, S2 and S3. The structure, which was initially determined at 1.07 A resolution and 283 K, has an Arg, in the S1 specificity pocket. The study was extended to 0.81 A resolution, at 100 K using crystals soaked in Arg, Lys and Gln to study in greater, detail the binding at the S1 site. The electron density in the binding, site was compared between the different structures and analysed in terms, of partially occupied and overlapping components of peptide, solvent water, and possibly other chemical moieties. Arg-soaked crystals reveal a density, more detailed but similar to the original structure, with the Arg side, chain visible in the S1 pocket and residual peptide density in the S2 and, S3 sites. The density in the active site is complex and not fully, interpreted. Lys at high concentrations displaces Arg in the S1 pocket, while some main-chain density remains in sites S2 and S3. Gln has been, shown not to bind. The free peptide in the S1-S3 sites binds in a similar, way to the binding loop of BPTI or the inhibitory domain of the, Alzheimer's beta-protein precursor, with some differences in the S1 site.
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<StructureSection load='1fy4' size='340' side='right'caption='[[1fy4]], [[Resolution|resolution]] 0.81&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1fy4]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Fusarium_oxysporum Fusarium oxysporum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1FY4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1FY4 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]] 0.81&#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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=1fy4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1fy4 OCA], [https://pdbe.org/1fy4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1fy4 RCSB], [https://www.ebi.ac.uk/pdbsum/1fy4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1fy4 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/TRYP_FUSOX TRYP_FUSOX]
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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/fy/1fy4_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=1fy4 ConSurf].
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<div style="clear:both"></div>
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==About this Structure==
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==See Also==
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1FY4 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Fusarium_oxysporum Fusarium oxysporum] with SO4 and GOL as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Trypsin Trypsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.4 3.4.21.4] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1FY4 OCA].
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*[[Trypsin 3D structures|Trypsin 3D structures]]
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__TOC__
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==Reference==
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</StructureSection>
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Fusarium oxysporum trypsin at atomic resolution at 100 and 283 K: a study of ligand binding., Rypniewski WR, Ostergaard PR, Norregaard-Madsen M, Dauter M, Wilson KS, Acta Crystallogr D Biol Crystallogr. 2001 Jan;57(Pt 1):8-19. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11134922 11134922]
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[[Category: Fusarium oxysporum]]
[[Category: Fusarium oxysporum]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Trypsin]]
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[[Category: Dauter M]]
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[[Category: Dauter, M.]]
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[[Category: Noerregaard-Madsen M]]
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[[Category: Noerregaard-Madsen, M.]]
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[[Category: Oestergaard P]]
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[[Category: Oestergaard, P.]]
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[[Category: Rypniewski WR]]
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[[Category: Rypniewski, W.R.]]
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[[Category: Wilson KS]]
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[[Category: Wilson, K.S.]]
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[[Category: GOL]]
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[[Category: SO4]]
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[[Category: beta barrel]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 15:27:22 2007''
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Current revision

FUSARIUM OXYSPORUM TRYPSIN AT ATOMIC RESOLUTION

PDB ID 1fy4

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