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3fvz

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{{Seed}}
 
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[[Image:3fvz.jpg|left|200px]]
 
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<!--
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==Structure of Peptidyl-alpha-hydroxyglycine alpha-Amidating Lyase (PAL)==
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The line below this paragraph, containing "STRUCTURE_3fvz", creates the "Structure Box" on the page.
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<StructureSection load='3fvz' size='340' side='right'caption='[[3fvz]], [[Resolution|resolution]] 2.35&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'>[[3fvz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FVZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FVZ FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><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=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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-->
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3fw0|3fw0]], [[1phm|1phm]]</div></td></tr>
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{{STRUCTURE_3fvz| PDB=3fvz | SCENE= }}
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Pam ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Peptidylamidoglycolate_lyase Peptidylamidoglycolate lyase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.2.5 4.3.2.5] </span></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=3fvz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fvz OCA], [https://pdbe.org/3fvz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3fvz RCSB], [https://www.ebi.ac.uk/pdbsum/3fvz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3fvz ProSAT]</span></td></tr>
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</table>
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== Function ==
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[[https://www.uniprot.org/uniprot/AMD_RAT AMD_RAT]] Bifunctional enzyme that catalyzes 2 sequential steps in C-terminal alpha-amidation of peptides. The monooxygenase part produces an unstable peptidyl(2-hydroxyglycine) intermediate that is dismutated to glyoxylate and the corresponding desglycine peptide amide by the lyase part. C-terminal amidation of peptides such as neuropeptides is essential for full biological activity.
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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/fv/3fvz_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=3fvz 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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Many neuropeptides and peptide hormones require amidation of their carboxy terminal for full biological activity. The enzyme peptidyl-alpha-hydroxyglycine alpha-amidating lyase (PAL; EC 4.3.2.5) catalyzes the second and last step of this reaction, N-dealkylation of the peptidyl-alpha-hydroxyglycine to generate the alpha-amidated peptide and glyoxylate. Here we report the X-ray crystal structure of the PAL catalytic core (PALcc) alone and in complex with the nonpeptidic substrate alpha-hydroxyhippuric acid. The structures show that PAL folds as a six-bladed beta-propeller. The active site is formed by a Zn(II) ion coordinated by three histidine residues; the substrate binds to this site with its alpha-hydroxyl group coordinated to the Zn(II) ion. The structures also reveal a tyrosine residue (Tyr(654)) at the active site as the catalytic base for hydroxyl deprotonation, an unusual role for tyrosine. A reaction mechanism is proposed based on this structural data and validated by biochemical analysis of site-directed PALcc mutants.
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===Structure of Peptidyl-alpha-hydroxyglycine alpha-Amidating Lyase (PAL)===
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Amidation of bioactive peptides: the structure of the lyase domain of the amidating enzyme.,Chufan EE, De M, Eipper BA, Mains RE, Amzel LM Structure. 2009 Jul 15;17(7):965-73. PMID:19604476<ref>PMID:19604476</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>
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<div class="pdbe-citations 3fvz" style="background-color:#fffaf0;"></div>
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<!--
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_19604476}}, adds the Publication Abstract to the page
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*[[Monooxygenase 3D structures|Monooxygenase 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 19604476 is the PubMed ID number.
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== References ==
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-->
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<references/>
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{{ABSTRACT_PUBMED_19604476}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Buffalo rat]]
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3FVZ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FVZ OCA].
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[[Category: Large Structures]]
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==Reference==
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<ref group="xtra">PMID:19604476</ref><references group="xtra"/>
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[[Category: Peptidylamidoglycolate lyase]]
[[Category: Peptidylamidoglycolate lyase]]
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[[Category: Rattus norvegicus]]
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[[Category: Amzel, L M]]
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[[Category: Amzel, L M.]]
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[[Category: Chufan, E E]]
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[[Category: Chufan, E E.]]
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[[Category: De, M]]
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[[Category: De, M.]]
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[[Category: Eipper, B A]]
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[[Category: Eipper, B A.]]
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[[Category: Mains, R E]]
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[[Category: Mains, R E.]]
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[[Category: Alternative splicing]]
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[[Category: Beta propeller]]
[[Category: Beta propeller]]
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[[Category: Calcium]]
 
[[Category: Cleavage on pair of basic residue]]
[[Category: Cleavage on pair of basic residue]]
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[[Category: Copper]]
 
[[Category: Cytoplasmic vesicle]]
[[Category: Cytoplasmic vesicle]]
[[Category: Glycoprotein]]
[[Category: Glycoprotein]]
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[[Category: Transmembrane]]
[[Category: Transmembrane]]
[[Category: Vitamin c]]
[[Category: Vitamin c]]
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[[Category: Zinc]]
 
[[Category: Zn-mad]]
[[Category: Zn-mad]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Sep 3 16:00:43 2009''
 

Current revision

Structure of Peptidyl-alpha-hydroxyglycine alpha-Amidating Lyase (PAL)

PDB ID 3fvz

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