4ube: Difference between revisions

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 <StructureSection load='4ube' size='340' side='right'caption='[[4ube]], [[Resolution|resolution]] 1.93&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4ube]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycbo Mycbo]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UBE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UBE FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4ube]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis_variant_bovis_AF2122/97 Mycobacterium tuberculosis variant bovis AF2122/97]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UBE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4UBE FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=2FA:2-(6-AMINO-2-FLUORO-PURIN-9-YL)-5-HYDROXYMETHYL-TETRAHYDRO-FURAN-3,4-DIOL'>2FA</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=2FA:2-(6-AMINO-2-FLUORO-PURIN-9-YL)-5-HYDROXYMETHYL-TETRAHYDRO-FURAN-3,4-DIOL'>2FA</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2pkk|2pkk]]</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=4ube FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ube OCA], [https://pdbe.org/4ube PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ube RCSB], [https://www.ebi.ac.uk/pdbsum/4ube PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ube ProSAT]</span></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">adoK, cbhK, Mb2225c ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=233413 MYCBO])</td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Adenosine_kinase Adenosine kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.20 2.7.1.20] </span></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ube FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ube OCA], [http://pdbe.org/4ube PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ube RCSB], [http://www.ebi.ac.uk/pdbsum/4ube PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ube ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/ADOK_MYCBO ADOK_MYCBO]] ATP dependent phosphorylation of adenosine to monophosphate derivatives (By similarity).
+[https://www.uniprot.org/uniprot/ADOK_MYCBO ADOK_MYCBO] ATP dependent phosphorylation of adenosine to monophosphate derivatives (By similarity).
-<div style="background-color:#fffaf0;">
-== Publication Abstract from PubMed ==
-Adenosine kinase (ADK) catalyzes the phosphorylation of adenosine (Ado) to adenosine monophosphate (AMP). It is part of the purine salvage pathway that has been identified only in eukaryotes, with the single exception of Mycobacterium spp. Whereas it is not clear if Mycobacterium tuberculosis (Mtb) ADK is essential, it has been shown that the enzyme can selectively phosphorylate nucleoside analogs to produce products toxic to the cell. We have determined the crystal structure of Mtb ADK unliganded as well as ligand (Ado) bound at 1.5- and 1.9-A resolution, respectively. The structure of the binary complexes with the inhibitor 2-fluoroadenosine (F-Ado) bound and with the adenosine 5'-(beta,gamma-methylene)triphosphate (AMP-PCP) (non-hydrolyzable ATP analog) bound were also solved at 1.9-A resolution. These four structures indicate that Mtb ADK is a dimer formed by an extended beta sheet. The active site of the unliganded ADK is in an open conformation, and upon Ado binding a lid domain of the protein undergoes a large conformation change to close the active site. In the closed conformation, the lid forms direct interactions with the substrate and residues of the active site. Interestingly, AMP-PCP binding alone was not sufficient to produce the closed state of the enzyme. The binding mode of F-Ado was characterized to illustrate the role of additional non-bonding interactions in Mtb ADK compared with human ADK.
-High resolution crystal structures of Mycobacterium tuberculosis adenosine kinase: insights into the mechanism and specificity of this novel prokaryotic enzyme.,Reddy MC, Palaninathan SK, Shetty ND, Owen JL, Watson MD, Sacchettini JC J Biol Chem. 2007 Sep 14;282(37):27334-42. Epub 2007 Jun 26. PMID:17597075<ref>PMID:17597075</ref>
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 4ube" style="background-color:#fffaf0;"></div>
 ==See Also==
 *[[Adenosine kinase 3D structures|Adenosine kinase 3D structures]]
-== References ==
-<references/>
 __TOC__
 </StructureSection>
-[[Category: Adenosine kinase]]
 [[Category: Large Structures]]
-[[Category: Mycbo]]
+[[Category: Mycobacterium tuberculosis variant bovis AF2122/97]]
-[[Category: Owen, J L]]
+[[Category: Owen JL]]
-[[Category: Palaninathan, S K]]
+[[Category: Palaninathan SK]]
-[[Category: Reddy, M C.M]]
+[[Category: Reddy MCM]]
-[[Category: Sacchettini, J C]]
+[[Category: Sacchettini JC]]
-[[Category: Shetty, N D]]
+[[Category: Shetty ND]]
-[[Category: Watson, M D]]
+[[Category: Watson MD]]
-[[Category: 2-fluoroadenosine]]
-[[Category: Complex]]
-[[Category: Transferase]]