1vkm

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (08:53, 6 November 2024) (edit) (undo)
 
(12 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:1vkm.png|left|200px]]
 
-
<!--
+
==Crystal structure of an indigoidine synthase a (idga)-like protein (tm1464) from thermotoga maritima msb8 at 1.90 A resolution==
-
The line below this paragraph, containing "STRUCTURE_1vkm", creates the "Structure Box" on the page.
+
<StructureSection load='1vkm' size='340' side='right'caption='[[1vkm]], [[Resolution|resolution]] 1.90&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'>[[1vkm]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima_MSB8 Thermotoga maritima MSB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1VKM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1VKM 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]] 1.9&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-
{{STRUCTURE_1vkm| PDB=1vkm | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1vkm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1vkm OCA], [https://pdbe.org/1vkm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1vkm RCSB], [https://www.ebi.ac.uk/pdbsum/1vkm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1vkm ProSAT], [https://www.topsan.org/Proteins/JCSG/1vkm TOPSAN]</span></td></tr>
-
 
+
</table>
-
===Crystal structure of an indigoidine synthase (IndA-like) protein (TM1464) from Thermotoga maritima at 1.90 A resolution===
+
== Function ==
-
 
+
[https://www.uniprot.org/uniprot/PSUG_THEMA PSUG_THEMA] Catalyzes the hydrolysis of pseudouridine 5'-phosphate (PsiMP) to ribose 5-phosphate and uracil.<ref>PMID:18591240</ref> Catalyzes the reversible cleavage of pseudouridine 5'-phosphate (PsiMP) to ribose 5-phosphate and uracil. Functions biologically in the cleavage direction, as part of a pseudouridine degradation pathway.[HAMAP-Rule:MF_01876]<ref>PMID:18591240</ref>
-
 
+
== Evolutionary Conservation ==
-
==About this Structure==
+
[[Image:Consurf_key_small.gif|200px|right]]
-
1VKM is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Thermotoga_maritima_msb8 Thermotoga maritima msb8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1VKM OCA].
+
Check<jmol>
-
 
+
<jmolCheckbox>
-
==Reference==
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/vk/1vkm_consurf.spt"</scriptWhenChecked>
-
Crystal structure of an indigoidine synthase A (IndA)-like protein (TM1464) from Thermotoga maritima at 1.90 A resolution reveals a new fold., Levin I, Miller MD, Schwarzenbacher R, McMullan D, Abdubek P, Ambing E, Biorac T, Cambell J, Canaves JM, Chiu HJ, Deacon AM, DiDonato M, Elsliger MA, Godzik A, Grittini C, Grzechnik SK, Hale J, Hampton E, Han GW, Haugen J, Hornsby M, Jaroszewski L, Karlak C, Klock HE, Koesema E, Kreusch A, Kuhn P, Lesley SA, Morse A, Moy K, Nigoghossian E, Ouyang J, Page R, Quijano K, Reyes R, Robb A, Sims E, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, Wang X, West B, Wolf G, Xu Q, Zagnitko O, Hodgson KO, Wooley J, Wilson IA, Proteins. 2005 Jun 1;59(4):864-8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15822122 15822122]
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
-
[[Category: Single protein]]
+
<text>to colour the structure by Evolutionary Conservation</text>
-
[[Category: Thermotoga maritima msb8]]
+
</jmolCheckbox>
-
[[Category: JCSG, Joint Center for Structural Genomics.]]
+
</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=1vkm ConSurf].
-
[[Category: Conserved hypothetical protein possibly involved in carbohydrate metabolism]]
+
<div style="clear:both"></div>
-
[[Category: Jcsg]]
+
== References ==
-
[[Category: Joint center for structural genomic]]
+
<references/>
-
[[Category: Protein structure initiative]]
+
__TOC__
-
[[Category: Psi]]
+
</StructureSection>
-
[[Category: Structural genomic]]
+
[[Category: Large Structures]]
-
[[Category: Tm1464]]
+
[[Category: Thermotoga maritima MSB8]]
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 23:58:36 2008''
+

Current revision

Crystal structure of an indigoidine synthase a (idga)-like protein (tm1464) from thermotoga maritima msb8 at 1.90 A resolution

PDB ID 1vkm

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/1vkm"
Personal tools