2i2x

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:01, 21 February 2024) (edit) (undo)
 
(11 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2i2x.gif|left|200px]]
 
-
<!--
+
==Crystal structure of methanol:cobalamin methyltransferase complex MtaBC from Methanosarcina barkeri==
-
The line below this paragraph, containing "STRUCTURE_2i2x", creates the "Structure Box" on the page.
+
<StructureSection load='2i2x' size='340' side='right'caption='[[2i2x]], [[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'>[[2i2x]] is a 16 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanosarcina_barkeri Methanosarcina barkeri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2I2X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2I2X 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=B13:5-HYDROXYBENZIMIDAZOLYLCOB(III)AMIDE'>B13</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-
{{STRUCTURE_2i2x| PDB=2i2x | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2i2x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2i2x OCA], [https://pdbe.org/2i2x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2i2x RCSB], [https://www.ebi.ac.uk/pdbsum/2i2x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2i2x ProSAT]</span></td></tr>
-
 
+
</table>
-
'''Crystal structure of methanol:cobalamin methyltransferase complex MtaBC from Methanosarcina barkeri'''
+
== Function ==
-
 
+
[https://www.uniprot.org/uniprot/MTAB_METBF MTAB_METBF] Methyltransferase involved in methanogenesis in the methanol pathway. Catalyzes the methylation of the MtaC-bound cob(I)amide.<ref>PMID:9057830</ref> <ref>PMID:9363780</ref>
-
 
+
== Evolutionary Conservation ==
-
==Overview==
+
[[Image:Consurf_key_small.gif|200px|right]]
-
Some methanogenic and acetogenic microorganisms have the catalytic capability to cleave heterolytically the C O bond of methanol. To obtain insight into the elusive enzymatic mechanism of this challenging chemical reaction we have investigated the methanol-activating MtaBC complex from Methanosarcina barkeri composed of the zinc-containing MtaB and the 5-hydroxybenzimidazolylcobamide-carrying MtaC subunits. Here we report the 2.5-A crystal structure of this complex organized as a (MtaBC)(2) heterotetramer. MtaB folds as a TIM barrel and contains a novel zinc-binding motif. Zinc(II) lies at the bottom of a funnel formed at the C-terminal beta-barrel end and ligates to two cysteinyl sulfurs (Cys-220 and Cys-269) and one carboxylate oxygen (Glu-164). MtaC is structurally related to the cobalamin-binding domain of methionine synthase. Its corrinoid cofactor at the top of the Rossmann domain reaches deeply into the funnel of MtaB, defining a region between zinc(II) and the corrinoid cobalt that must be the binding site for methanol. The active site geometry supports a S(N)2 reaction mechanism, in which the C O bond in methanol is activated by the strong electrophile zinc(II) and cleaved because of an attack of the supernucleophile cob(I)amide. The environment of zinc(II) is characterized by an acidic cluster that increases the charge density on the zinc(II), polarizes methanol, and disfavors deprotonation of the methanol hydroxyl group. Implications of the MtaBC structure for the second step of the reaction, in which the methyl group is transferred to coenzyme M, are discussed.
+
Check<jmol>
-
 
+
<jmolCheckbox>
-
==About this Structure==
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/i2/2i2x_consurf.spt"</scriptWhenChecked>
-
2I2X is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Methanosarcina_barkeri Methanosarcina barkeri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2I2X OCA].
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
 
+
<text>to colour the structure by Evolutionary Conservation</text>
-
==Reference==
+
</jmolCheckbox>
-
Insight into the mechanism of biological methanol activation based on the crystal structure of the methanol-cobalamin methyltransferase complex., Hagemeier CH, Krer M, Thauer RK, Warkentin E, Ermler U, Proc Natl Acad Sci U S A. 2006 Dec 12;103(50):18917-22. Epub 2006 Dec 1. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17142327 17142327]
+
</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=2i2x ConSurf].
-
[[Category: Methanol--5-hydroxybenzimidazolylcobamide Co-methyltransferase]]
+
<div style="clear:both"></div>
 +
== References ==
 +
<references/>
 +
__TOC__
 +
</StructureSection>
 +
[[Category: Large Structures]]
[[Category: Methanosarcina barkeri]]
[[Category: Methanosarcina barkeri]]
-
[[Category: Protein complex]]
+
[[Category: Ermler U]]
-
[[Category: Ermler, U.]]
+
[[Category: Hagemeier CH]]
-
[[Category: Hagemeier, C H.]]
+
[[Category: Kruer M]]
-
[[Category: Kruer, M.]]
+
[[Category: Thauer RK]]
-
[[Category: Thauer, R K.]]
+
[[Category: Warkentin E]]
-
[[Category: Warkentin, E.]]
+
-
[[Category: Transferase]]
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Apr 30 13:25:39 2008''
+

Current revision

Crystal structure of methanol:cobalamin methyltransferase complex MtaBC from Methanosarcina barkeri

PDB ID 2i2x

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2i2x"
Personal tools