3onf: Difference between revisions

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-[[Image:3onf.png|left|200px]]
-<!--
+==Crystal structure of Lupinus luteus S-adenosyl-L-homocysteine hydrolase in complex with cordycepin==
-The line below this paragraph, containing "STRUCTURE_3onf", creates the "Structure Box" on the page.
+<StructureSection load='3onf' size='340' side='right'caption='[[3onf]], [[Resolution|resolution]] 2.00&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'>[[3onf]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Lupinus_luteus Lupinus luteus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ONF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ONF 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&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=3AD:3-DEOXYADENOSINE'>3AD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
-{{STRUCTURE_3onf|  PDB=3onf  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3onf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3onf OCA], [https://pdbe.org/3onf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3onf RCSB], [https://www.ebi.ac.uk/pdbsum/3onf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3onf ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/SAHH_LUPLU SAHH_LUPLU] Adenosylhomocysteine is a competitive inhibitor of S-adenosyl-L-methionine-dependent methyl transferase reactions; therefore adenosylhomocysteinase may play a key role in the control of methylations via regulation of the intracellular concentration of adenosylhomocysteine (By similarity).
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+S-Adenosyl-L-homocysteine hydrolase (SAHase) catalyzes the reversible breakdown of S-adenosyl-L-homocysteine (SAH) to adenosine and homocysteine. SAH is formed in methylation reactions that utilize S-adenosyl-L-methionine (SAM) as a methyl donor. By removing the SAH byproduct, SAHase serves as a major regulator of SAM-dependent biological methylation reactions. Here, the first crystal structure of SAHase of plant origin, that from the legume yellow lupin (LlSAHase), is presented. Structures have been determined at high resolution for three complexes of the enzyme: those with a reaction byproduct/substrate (adenosine), with its nonoxidizable analog (cordycepin) and with a product of inhibitor cleavage (adenine). In all three cases the enzyme has a closed conformation. A sodium cation is found near the active site, coordinated by residues from a conserved loop that hinges domain movement upon reactant binding. An insertion segment that is present in all plant SAHases is located near a substrate-pocket access channel and participates in its formation. In contrast to mammalian and bacterial SAHases, the channel is open when adenosine or cordycepin is bound and is closed in the adenine complex. In contrast to SAHases from other organisms, which are active as tetramers, the plant enzyme functions as a homodimer in solution.
-===Crystal structure of Lupinus luteus S-adenosyl-L-homocysteine hydrolase in complex with cordycepin===
+High-resolution structures of complexes of plant S-adenosyl-L-homocysteine hydrolase (Lupinus luteus).,Brzezinski K, Dauter Z, Jaskolski M Acta Crystallogr D Biol Crystallogr. 2012 Mar;68(Pt 3):218-31. Epub 2012 Feb 7. PMID:22349223<ref>PMID:22349223</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3onf" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_22349223}}, adds the Publication Abstract to the page
+*[[S-adenosylhomocysteine hydrolase|S-adenosylhomocysteine hydrolase]]
-(as it appears on PubMed at http://www.pubmed.gov), where 22349223 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_22349223}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-[[3onf]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Lupinus_luteus Lupinus luteus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ONF OCA].
-==Reference==
-<ref group="xtra">PMID:022349223</ref><ref group="xtra">PMID:018607106</ref><ref group="xtra">PMID:011732617</ref><ref group="xtra">PMID:009586999</ref><ref group="xtra">PMID:010387078</ref><ref group="xtra">PMID:015476817</ref><ref group="xtra">PMID:018815415</ref><ref group="xtra">PMID:015579379</ref><references group="xtra"/>
-[[Category: Adenosylhomocysteinase]]
 [[Category: Lupinus luteus]]
-[[Category: Brzezinski, K.]]
+[[Category: Brzezinski K]]
-[[Category: Jaskolski, M.]]
+[[Category: Jaskolski M]]
-[[Category: Enzyme-inhibitor complex]]
-[[Category: Hydrolase-hydrolase inhibitor complex]]
-[[Category: Nad cofactor]]
-[[Category: Plant protein]]
-[[Category: Regulation of sam-dependent methylation reaction]]