3iv9: Difference between revisions

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-{{Seed}}
-[[Image:3iv9.jpg|left|200px]]
-<!--
+==Structure of the B12-dependent Methionine Synthase (MetH) C-teminal half in a "His-On" conformation==
-The line below this paragraph, containing "STRUCTURE_3iv9", creates the "Structure Box" on the page.
+<StructureSection load='3iv9' size='340' side='right'caption='[[3iv9]], [[Resolution|resolution]] 3.25&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'>[[3iv9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IV9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3IV9 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]] 3.25&#8491;</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=3iv9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iv9 OCA], [https://pdbe.org/3iv9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3iv9 RCSB], [https://www.ebi.ac.uk/pdbsum/3iv9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3iv9 ProSAT]</span></td></tr>
-{{STRUCTURE_3iv9|  PDB=3iv9  |  SCENE=  }}
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/METH_ECOLI METH_ECOLI] Catalyzes the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Subsequently, remethylates the cofactor using methyltetrahydrofolate.
+== 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/iv/3iv9_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=3iv9 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Cobalamin-dependent methionine synthase (MetH) is a modular protein that catalyzes the transfer of a methyl group from methyltetrahydrofolate to homocysteine to produce methionine and tetrahydrofolate. The cobalamin cofactor, which serves as both acceptor and donor of the methyl group, is oxidized once every approximately 2,000 catalytic cycles and must be reactivated by the uptake of an electron from reduced flavodoxin and a methyl group from S-adenosyl-L-methionine (AdoMet). Previous structures of a C-terminal fragment of MetH (MetH(CT)) revealed a reactivation conformation that juxtaposes the cobalamin- and AdoMet-binding domains. Here we describe 2 structures of a disulfide stabilized MetH(CT) ((s-s)MetH(CT)) that offer further insight into the reactivation of MetH. The structure of (s-s)MetH(CT) with cob(II)alamin and S-adenosyl-L-homocysteine represents the enzyme in the reactivation step preceding electron transfer from flavodoxin. The structure supports earlier suggestions that the enzyme acts to lower the reduction potential of the Co(II)/Co(I) couple by elongating the bond between the cobalt and its upper axial water ligand, effectively making the cobalt 4-coordinate, and illuminates the role of Tyr-1139 in the stabilization of this 4-coordinate state. The structure of (s-s)MetH(CT) with aquocobalamin may represent a transient state at the end of reactivation as the newly remethylated 5-coordinate methylcobalamin returns to the 6-coordinate state, triggering the rearrangement to a catalytic conformation.
-===Structure of the B12-dependent Methionine Synthase (MetH) C-teminal half in a "His-On" conformation===
+Insights into the reactivation of cobalamin-dependent methionine synthase.,Koutmos M, Datta S, Pattridge KA, Smith JL, Matthews RG Proc Natl Acad Sci U S A. 2009 Nov 3;106(44):18527-32. Epub 2009 Oct 21. PMID:19846791<ref>PMID:19846791</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3iv9" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_19846791}}, adds the Publication Abstract to the page
+*[[Methionine synthase 3D structures|Methionine synthase 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 19846791 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_19846791}}
+__TOC__
+</StructureSection>
-==About this Structure==
-IV9 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IV9 OCA].
-==Reference==
-<ref group="xtra">PMID:19846791</ref><references group="xtra"/>
 [[Category: Escherichia coli]]
-[[Category: Methionine synthase]]
+[[Category: Large Structures]]
-[[Category: Koutmos, M.]]
+[[Category: Koutmos M]]
-[[Category: Pattridge, K A.]]
+[[Category: Pattridge KA]]
-[[Category: Smith, J L.]]
+[[Category: Smith JL]]
-[[Category: Amino-acid biosynthesis]]
-[[Category: Cobalamin]]
-[[Category: Cobalt]]
-[[Category: H759]]
-[[Category: Intermodular interaction]]
-[[Category: Metal-binding]]
-[[Category: Meth]]
-[[Category: Methionine biosynthesis]]
-[[Category: Methyltransferase]]
-[[Category: Reactivation conformation]]
-[[Category: S-adenosyl-l-methionine]]
-[[Category: Transferase]]
-[[Category: Zinc]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 25 09:43:12 2009''