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1byf

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{{Seed}}
 
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[[Image:1byf.png|left|200px]]
 
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==STRUCTURE OF TC14; A C-TYPE LECTIN FROM THE TUNICATE POLYANDROCARPA MISAKIENSIS==
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The line below this paragraph, containing "STRUCTURE_1byf", creates the "Structure Box" on the page.
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<StructureSection load='1byf' size='340' side='right'caption='[[1byf]], [[Resolution|resolution]] 2.00&Aring;' 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'>[[1byf]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Polyandrocarpa_misakiensis Polyandrocarpa misakiensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BYF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1BYF 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">X-ray diffraction, [[Resolution|Resolution]] 2&#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=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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{{STRUCTURE_1byf| PDB=1byf | 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=1byf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1byf OCA], [https://pdbe.org/1byf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1byf RCSB], [https://www.ebi.ac.uk/pdbsum/1byf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1byf ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/LECC_POLMI LECC_POLMI] Role in the defense system of the organism against microorganisms. This calcium-binding lectin binds galactose.
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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/by/1byf_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=1byf 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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C-type lectins are calcium-dependent carbohydrate-recognising proteins. Isothermal titration calorimetry of the C-type Polyandrocarpa lectin (TC14) from the tunicate Polyandrocarpa misakiensis revealed the presence of a single calcium atom per monomer with a dissociation constant of 2.6 microM, and confirmed the specificity of TC14 for D -galactose and related monosaccharides. We have determined the 2.2 A X-ray crystal structure of Polyandrocarpa lectin complexed with D -galactose. Analytical ultracentrifugation revealed that TC14 behaves as a dimer in solution. This is reflected by the presence of two molecules in the asymmetric unit with the dimeric interface formed by antiparallel pairing of the two N-terminal beta-strands and hydrophobic interactions. TC14 adopts a typical C-type lectin fold with differences in structure from other C-type lectins mainly in the diverse loop regions and in the second alpha-helix, which is involved in the formation of the dimeric interface. The D -galactose is bound through coordination of the 3 and 4-hydroxyl oxygen atoms with a bound calcium atom. Additional hydrogen bonds are formed directly between serine, aspartate and glutamate side-chains of the protein and the sugar 3 and 4-hydroxyl groups. Comparison of the galactose binding by TC14 with the mannose binding by rat mannose-binding protein reveals how monosaccharide specificity is achieved in this lectin. A tryptophan side-chain close to the binding site and the distribution of hydrogen-bond acceptors and donors around the 3 and 4-hydroxyl groups of the sugar are essential determinants of specificity. These elements are, however, arranged in a very different way than in an engineered galactose-specific mutant of MBPA. Possible biological functions can more easily be understood from the fact that TC14 is a dimer under physiological conditions.
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===STRUCTURE OF TC14; A C-TYPE LECTIN FROM THE TUNICATE POLYANDROCARPA MISAKIENSIS===
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The structure of a tunicate C-type lectin from Polyandrocarpa misakiensis complexed with D -galactose.,Poget SF, Legge GB, Proctor MR, Butler PJ, Bycroft M, Williams RL J Mol Biol. 1999 Jul 23;290(4):867-79. PMID:10398588<ref>PMID:10398588</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 class="pdbe-citations 1byf" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 10398588 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_10398588}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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1BYF is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Polyandrocarpa_misakiensis Polyandrocarpa misakiensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BYF OCA].
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==Reference==
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<ref group="xtra">PMID:10398588</ref><references group="xtra"/>
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[[Category: Polyandrocarpa misakiensis]]
[[Category: Polyandrocarpa misakiensis]]
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[[Category: Bycroft, M.]]
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[[Category: Bycroft M]]
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[[Category: Legge, G B.]]
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[[Category: Legge GB]]
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[[Category: Poget, S F.]]
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[[Category: Poget SF]]
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[[Category: Williams, R L.]]
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[[Category: Williams RL]]
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[[Category: C-type lectin]]
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[[Category: Galactose-specific]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 08:04:53 2009''
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Current revision

STRUCTURE OF TC14; A C-TYPE LECTIN FROM THE TUNICATE POLYANDROCARPA MISAKIENSIS

PDB ID 1byf

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