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1lyk

From Proteopedia

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[[Image:1lyk.jpg|left|200px]]
 
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{{Structure
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==THE IMPACT OF THE PHYSICAL AND CHEMICAL ENVIROMENT ON THE MOLECULAR STRUCTURE OF COPRINUS CINEREUS PEROXIDASE==
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|PDB= 1lyk |SIZE=350|CAPTION= <scene name='initialview01'>1lyk</scene>, resolution 2.00&Aring;
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<StructureSection load='1lyk' size='340' side='right'caption='[[1lyk]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
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|SITE=
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== Structural highlights ==
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|LIGAND= <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene> and <scene name='pdbligand=HEM:PROTOPORPHYRIN IX CONTAINING FE'>HEM</scene>
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<table><tr><td colspan='2'>[[1lyk]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Coprinopsis_cinerea Coprinopsis cinerea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LYK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1LYK FirstGlance]. <br>
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|ACTIVITY= [http://en.wikipedia.org/wiki/Peroxidase Peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.7 1.11.1.7]
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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]] 2&#8491;</td></tr>
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|GENE= CIP1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=5346 Coprinopsis cinerea])
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
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}}
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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=1lyk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lyk OCA], [https://pdbe.org/1lyk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1lyk RCSB], [https://www.ebi.ac.uk/pdbsum/1lyk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1lyk ProSAT]</span></td></tr>
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</table>
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'''THE IMPACT OF THE PHYSICAL AND CHEMICAL ENVIROMENT ON THE MOLECULAR STRUCTURE OF COPRINUS CINEREUS PEROXIDASE'''
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== Function ==
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[https://www.uniprot.org/uniprot/PER_COPCI PER_COPCI]
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== Evolutionary Conservation ==
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==Overview==
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[[Image:Consurf_key_small.gif|200px|right]]
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The structure of the peroxidase from Coprinus cinereus (CiP) has been determined in three different space groups and crystalline environments. Two of these are of the recombinant glycosylated form (rCiP), which crystallized in space groups P2(1)2(1)2(1) and C2. The third crystal form was obtained from a variant of CiP in which the glycosylation sites have been removed (rCiPON). It crystallizes in space group P2(1) with beta approximately 90 degrees; the structure was determined from room-temperature data and low-temperature data obtained from twinned crystals. Two independent molecules of CiP related by non-crystallographic symmetry are contained in the three crystal forms. The packing in the two structures of the glycosylated form of rCiP is closely related, but differs from the packing in the unglycosylated rCiPON. A database search based on small-molecule porphinato iron (III) complexes has been performed and related to observations of the spin states and coordination numbers of the iron ion. The room-temperature structures of CiP and one structure of the almost identical peroxidase from Arthromyces ramosus (ARP) have been used to identify 66 conserved water molecules and to assign a structural role to most of them.
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Check<jmol>
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<jmolCheckbox>
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==About this Structure==
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ly/1lyk_consurf.spt"</scriptWhenChecked>
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1LYK is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Coprinopsis_cinerea Coprinopsis cinerea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LYK OCA].
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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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==Reference==
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</jmolCheckbox>
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Impact of the physical and chemical environment on the molecular structure of Coprinus cinereus peroxidase., Houborg K, Harris P, Petersen J, Rowland P, Poulsen JC, Schneider P, Vind J, Larsen S, Acta Crystallogr D Biol Crystallogr. 2003 Jun;59(Pt 6):989-96. Epub 2003, May 23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12777760 12777760]
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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=1lyk ConSurf].
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<div style="clear:both"></div>
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__TOC__
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</StructureSection>
[[Category: Coprinopsis cinerea]]
[[Category: Coprinopsis cinerea]]
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[[Category: Peroxidase]]
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[[Category: Large Structures]]
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[[Category: Single protein]]
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[[Category: Harris P]]
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[[Category: Harris, P.]]
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[[Category: Houborg K]]
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[[Category: Houborg, K.]]
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[[Category: Larsen S]]
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[[Category: Larsen, S.]]
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[[Category: Petersen JFW]]
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[[Category: Petersen, J F.W.]]
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[[Category: Poulsen J-CN]]
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[[Category: Poulsen, J C.N.]]
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[[Category: Rowland P]]
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[[Category: Rowland, P.]]
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[[Category: Schneider P]]
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[[Category: Schneider, P.]]
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[[Category: Vind J]]
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[[Category: Vind, J.]]
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[[Category: BMA]]
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[[Category: CA]]
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[[Category: HEM]]
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[[Category: MAN]]
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[[Category: MG]]
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[[Category: NAG]]
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[[Category: coprinus cinereus]]
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[[Category: mutant]]
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[[Category: peroxidase]]
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[[Category: thermostability]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 12:36:40 2008''
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Current revision

THE IMPACT OF THE PHYSICAL AND CHEMICAL ENVIROMENT ON THE MOLECULAR STRUCTURE OF COPRINUS CINEREUS PEROXIDASE

PDB ID 1lyk

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