3bkn: Difference between revisions

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-[[Image:3bkn.jpg|left|200px]]
- {{Structure
+==The structure of Mycobacterial bacterioferritin==
-|PDB= 3bkn |SIZE=350|CAPTION= <scene name='initialview01'>3bkn</scene>, resolution 2.72&Aring;
+<StructureSection load='3bkn' size='340' side='right'caption='[[3bkn]], [[Resolution|resolution]] 2.72&Aring;' scene=''>
-|SITE=
+== Structural highlights ==
-|LIGAND= <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene> and <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID'>EPE</scene>
+<table><tr><td colspan='2'>[[3bkn]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycolicibacterium_smegmatis_MC2_155 Mycolicibacterium smegmatis MC2 155]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3b3h 3b3h]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BKN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BKN FirstGlance]. <br>
-|ACTIVITY=
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.72&#8491;</td></tr>
-|GENE=
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-}}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3bkn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bkn OCA], [https://pdbe.org/3bkn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bkn RCSB], [https://www.ebi.ac.uk/pdbsum/3bkn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bkn ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/A0QY79_MYCS2 A0QY79_MYCS2] Iron-storage protein, whose ferroxidase center binds Fe(2+) ions, oxidizes them by dioxygen to Fe(3+), and participates in the subsequent Fe(3+) oxide mineral core formation within the central cavity of the protein complex (By similarity).[PIRNR:PIRNR002560]
+== 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/bk/3bkn_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=3bkn ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Bacterioferritins, also known as cytochrome b (1), are oligomeric iron-storage proteins consisting of 24 identical amino acid chains, which form spherical particles consisting of 24 subunits and exhibiting 432 point-group symmetry. They contain one haem b molecule at the interface between two subunits and a di-nuclear metal binding center. The X-ray structure of bacterioferritin from Mycobacterium smegmatis (Ms-Bfr) was determined to a resolution of 2.7 A in the monoclinic space group C2. The asymmetric unit of the crystals contains 12 protein molecules: five dimers and two half-dimers located along the crystallographic twofold axis. Unexpectedly, the di-nuclear metal binding center contains zinc ions instead of the typically observed iron ions in other bacterioferritins.
-'''The structure of Mycobacterial bacterioferritin'''
+Bacterioferritin from Mycobacterium smegmatis contains zinc in its di-nuclear site.,Janowski R, Auerbach-Nevo T, Weiss MS Protein Sci. 2008 Jul;17(7):1138-50. Epub 2008 Apr 29. PMID:18445621<ref>PMID:18445621</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3bkn" style="background-color:#fffaf0;"></div>
-==About this Structure==
+==See Also==
-BKN is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Mycobacterium_smegmatis Mycobacterium smegmatis]. This structure supersedes the now removed PDB entry 3B3H. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BKN OCA].
+*[[Ferritin 3D structures|Ferritin 3D structures]]
-[[Category: Mycobacterium smegmatis]]
+== References ==
-[[Category: Single protein]]
+<references/>
-[[Category: Auerbach-Nevo, T.]]
+__TOC__
-[[Category: Janowski, R.]]
+</StructureSection>
-[[Category: Weiss, M S.]]
+[[Category: Large Structures]]
-[[Category: EPE]]
+[[Category: Mycolicibacterium smegmatis MC2 155]]
-[[Category: HEM]]
+[[Category: Auerbach-Nevo T]]
-[[Category: MG]]
+[[Category: Janowski R]]
-[[Category: ZN]]
+[[Category: Weiss MS]]
-[[Category: bacterioferritin]]
-[[Category: cytochrom b1]]
-[[Category: heme]]
-[[Category: iron]]
-[[Category: iron storage]]
-[[Category: metal binding protein]]
-[[Category: metal-binding]]
-[[Category: mycobacterium smegmati]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 18:59:44 2008''