1u6j

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (06:39, 23 August 2023) (edit) (undo)
 
(10 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:1u6j.png|left|200px]]
 
-
<!--
+
==The Structure of native coenzyme F420-dependent methylenetetrahydromethanopterin dehydrogenase at 2.4A resolution==
-
The line below this paragraph, containing "STRUCTURE_1u6j", creates the "Structure Box" on the page.
+
<StructureSection load='1u6j' size='340' side='right'caption='[[1u6j]], [[Resolution|resolution]] 2.40&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'>[[1u6j]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanopyrus_kandleri Methanopyrus kandleri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1U6J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1U6J 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]] 2.4&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-
{{STRUCTURE_1u6j| PDB=1u6j | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1u6j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1u6j OCA], [https://pdbe.org/1u6j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1u6j RCSB], [https://www.ebi.ac.uk/pdbsum/1u6j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1u6j ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/MTD_METKA MTD_METKA] Catalyzes the reversible reduction of methenyl-H(4)MPT(+) to methylene-H(4)MPT.<ref>PMID:9151968</ref>
 +
== 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/u6/1u6j_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=1u6j ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
The diffraction pattern of native protein crystals of F(420)-dependent methylenetetrahydromethanopterin dehydrogenase from Methanopyrus kandleri shows weak additional reflections compared with the selenomethionine-labelled protein crystals, indicating a doubled c unit-cell parameter. These reflections indicate small reorientations of the hexameric structural units, breaking the translational symmetry. TLS refinement of the selenomethionine-labelled protein structure at 1.55 A resolution revealed an anisotropic rigid-body libration of the hexameric units. The anisotropy is consistent with the static reorientation in the native protein crystals. These results are discussed as related to the crystal packing. The relation between the two structures suggests an analogy to structural changes during certain kinds of phase transitions that have been well studied in inorganic structural chemistry.
-
===The Structure of native coenzyme F420-dependent methylenetetrahydromethanopterin dehydrogenase at 2.4A resolution===
+
The structure of F420-dependent methylenetetrahydromethanopterin dehydrogenase: a crystallographic 'superstructure' of the selenomethionine-labelled protein crystal structure.,Warkentin E, Hagemeier CH, Shima S, Thauer RK, Ermler U Acta Crystallogr D Biol Crystallogr. 2005 Feb;61(Pt 2):198-202. Epub 2005, Jan 19. PMID:15681872<ref>PMID:15681872</ref>
-
 
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
<!--
+
</div>
-
The line below this paragraph, {{ABSTRACT_PUBMED_15681872}}, adds the Publication Abstract to the page
+
<div class="pdbe-citations 1u6j" style="background-color:#fffaf0;"></div>
-
(as it appears on PubMed at http://www.pubmed.gov), where 15681872 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_15681872}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
[[Category: Large Structures]]
-
1U6J is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Methanopyrus_kandleri Methanopyrus kandleri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1U6J OCA].
+
-
 
+
-
==Reference==
+
-
The structure of F420-dependent methylenetetrahydromethanopterin dehydrogenase: a crystallographic 'superstructure' of the selenomethionine-labelled protein crystal structure., Warkentin E, Hagemeier CH, Shima S, Thauer RK, Ermler U, Acta Crystallogr D Biol Crystallogr. 2005 Feb;61(Pt 2):198-202. Epub 2005, Jan 19. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15681872 15681872]
+
-
 
+
-
Coenzyme F420-dependent methylenetetrahydromethanopterin dehydrogenase (Mtd) from Methanopyrus kandleri: a methanogenic enzyme with an unusual quarternary structure., Hagemeier CH, Shima S, Thauer RK, Bourenkov G, Bartunik HD, Ermler U, J Mol Biol. 2003 Oct 3;332(5):1047-57. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/14499608 14499608]
+
[[Category: Methanopyrus kandleri]]
[[Category: Methanopyrus kandleri]]
-
[[Category: Methylenetetrahydromethanopterin dehydrogenase]]
+
[[Category: Ermler U]]
-
[[Category: Single protein]]
+
[[Category: Hagemeier CH]]
-
[[Category: Ermler, U.]]
+
[[Category: Shima S]]
-
[[Category: Hagemeier, C H.]]
+
[[Category: Thauer RK]]
-
[[Category: Shima, S.]]
+
[[Category: Warkentin E]]
-
[[Category: Thauer, R K.]]
+
-
[[Category: Warkentin, E.]]
+
-
[[Category: Helix bundle]]
+
-
[[Category: Monomer: alpha/beta domain]]
+
-
[[Category: Trimer of dimer]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 12:16:05 2008''
+

Current revision

The Structure of native coenzyme F420-dependent methylenetetrahydromethanopterin dehydrogenase at 2.4A resolution

PDB ID 1u6j

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/1u6j"
Personal tools