3lmu

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (08:31, 20 March 2024) (edit) (undo)
 
(5 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:3lmu.png|left|200px]]
 
-
{{STRUCTURE_3lmu| PDB=3lmu | SCENE= }}
+
==Crystal structure of DTD from Plasmodium falciparum==
-
 
+
<StructureSection load='3lmu' size='340' side='right'caption='[[3lmu]], [[Resolution|resolution]] 3.30&Aring;' scene=''>
-
===Crystal strucutre of DTD from Plasmodium falciparum===
+
== Structural highlights ==
-
 
+
<table><tr><td colspan='2'>[[3lmu]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Plasmodium_falciparum_3D7 Plasmodium falciparum 3D7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LMU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3LMU FirstGlance]. <br>
-
{{ABSTRACT_PUBMED_20445234}}
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.3&#8491;</td></tr>
-
 
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene></td></tr>
-
==About this Structure==
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3lmu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lmu OCA], [https://pdbe.org/3lmu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3lmu RCSB], [https://www.ebi.ac.uk/pdbsum/3lmu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3lmu ProSAT]</span></td></tr>
-
[[3lmu]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Plasmodium_falciparum Plasmodium falciparum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LMU OCA].
+
</table>
-
 
+
== Function ==
-
==Reference==
+
[https://www.uniprot.org/uniprot/DTD_PLAF7 DTD_PLAF7] D-aminoacyl-tRNA deacylase, with no observable activity on tRNAs charged with their cognate L-amino acid (PubMed:20007323, PubMed:24302572, PubMed:27224426). Probably acts by rejecting L-amino acids from its binding site rather than specific recognition of D-amino acids (PubMed:27224426). Catalyzes the hydrolysis of D-tyrosyl-tRNA(Tyr), has no activity on correctly charged L-tyrosyl-tRNA(Tyr) (PubMed:20007323, PubMed:24302572, PubMed:27224426). Hydrolyzes correctly charged, achiral, glycyl-tRNA(Gly) (PubMed:27224426). Deacylates mischarged D.melanogaster and E.coli glycyl-tRNA(Ala) (PubMed:28362257). Probably acts via tRNA-based rather than protein-based catalysis (PubMed:24302572, PubMed:27224426). Acts on tRNAs only when the D-amino acid is either attached to the ribose 3'-OH or transferred to the 3'-OH from the 2'-OH through rapid transesterification (PubMed:24302572). Binds a number of other D-amino acids (D-Arg, D-Glu, D-His, D-Lys, D-Ser), suggesting it may also deacylate other mischarged tRNAs (PubMed:20007323).<ref>PMID:20007323</ref> <ref>PMID:24302572</ref> <ref>PMID:27224426</ref> <ref>PMID:28362257</ref>
-
<ref group="xtra">PMID:020445234</ref><references group="xtra"/>
+
== Evolutionary Conservation ==
-
[[Category: Plasmodium falciparum]]
+
[[Image:Consurf_key_small.gif|200px|right]]
-
[[Category: Bhatt, T K.]]
+
Check<jmol>
-
[[Category: Khan, S.]]
+
<jmolCheckbox>
-
[[Category: Manickam, Y.]]
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/lm/3lmu_consurf.spt"</scriptWhenChecked>
-
[[Category: Sharma, A.]]
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
[[Category: Deacylase]]
+
<text>to colour the structure by Evolutionary Conservation</text>
-
[[Category: Dtd]]
+
</jmolCheckbox>
-
[[Category: Hydrolase]]
+
</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=3lmu ConSurf].
-
[[Category: Iodide]]
+
<div style="clear:both"></div>
 +
== References ==
 +
<references/>
 +
__TOC__
 +
</StructureSection>
 +
[[Category: Large Structures]]
 +
[[Category: Plasmodium falciparum 3D7]]
 +
[[Category: Bhatt TK]]
 +
[[Category: Khan S]]
 +
[[Category: Manickam Y]]
 +
[[Category: Sharma A]]

Current revision

Crystal structure of DTD from Plasmodium falciparum

PDB ID 3lmu

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools