3bpm: Difference between revisions

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-{{Seed}}
-[[Image:3bpm.png|left|200px]]
-<!--
+==Crystal Structure of Falcipain-3 with Its inhibitor, Leupeptin==
-The line below this paragraph, containing "STRUCTURE_3bpm", creates the "Structure Box" on the page.
+<StructureSection load='3bpm' size='340' side='right'caption='[[3bpm]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[3bpm]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Plasmodium_falciparum Plasmodium falciparum] and [https://en.wikipedia.org/wiki/Streptomyces_roseus Streptomyces roseus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BPM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BPM FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.5&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=AR7:AMINO{[(4S)-4-AMINO-5,5-DIHYDROXYPENTYL]AMINO}METHANIMINIUM'>AR7</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-{{STRUCTURE_3bpm|  PDB=3bpm  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3bpm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bpm OCA], [https://pdbe.org/3bpm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bpm RCSB], [https://www.ebi.ac.uk/pdbsum/3bpm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bpm ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/FPC3_PLAF7 FPC3_PLAF7] Cysteine protease which cleaves native host hemoglobin and globin in the food vacuole during the asexual blood stage (PubMed:11716777, PubMed:19357776). Preferentially cleaves substrates which have an arginine at the P1 position and a leucine at the P2 position (PubMed:19357776).<ref>PMID:11716777</ref> <ref>PMID:19357776</ref>
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bp/3bpm_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
+</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=3bpm ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Falcipain-2 and falcipain-3 are critical hemoglobinases of Plasmodium falciparum, the most virulent human malaria parasite. We have determined the 2.9 A crystal structure of falcipain-2 in complex with the epoxysuccinate E64 and the 2.5 A crystal structure of falcipain-3 in complex with the aldehyde leupeptin. These complexes represent the first crystal structures of plasmodial cysteine proteases with small molecule inhibitors and the first reported crystal structure of falcipain-3. Our structural analyses indicate that the relative shape and flexibility of the S2 pocket are affected by a number of discrete amino acid substitutions. The cumulative effect of subtle differences, including those at "gatekeeper" positions, may explain the observed kinetic differences between these two closely related enzymes.
-===Crystal Structure of Falcipain-3 with Its inhibitor, Leupeptin===
+Structures of falcipain-2 and falcipain-3 bound to small molecule inhibitors: implications for substrate specificity.,Kerr ID, Lee JH, Pandey KC, Harrison A, Sajid M, Rosenthal PJ, Brinen LS J Med Chem. 2009 Feb 12;52(3):852-7. PMID:19128015<ref>PMID:19128015</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<!--
+</div>
-The line below this paragraph, {{ABSTRACT_PUBMED_19128015}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 3bpm" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 19128015 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_19128015}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-BPM is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Plasmodium_falciparum Plasmodium falciparum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BPM OCA].
-==Reference==
-<ref group="xtra">PMID:19128015</ref><references group="xtra"/>
 [[Category: Plasmodium falciparum]]
-[[Category: Brinen, L S.]]
+[[Category: Streptomyces roseus]]
-[[Category: Lee, J H.]]
+[[Category: Brinen LS]]
-[[Category: Kerr, I D.]]
+[[Category: Lee JH]]
-[[Category: Crystal structure]]
+[[Category: Kerr ID]]
-[[Category: Cysteine protease]]
-[[Category: Falcipain]]
-[[Category: Hydrolase]]
-[[Category: Malaria]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 22 10:28:45 2009''