This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


3hl2

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:23, 6 September 2023) (edit) (undo)
 
(8 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:3hl2.jpg|left|200px]]
 
-
<!--
+
==The crystal structure of the human SepSecS-tRNASec complex==
-
The line below this paragraph, containing "STRUCTURE_3hl2", creates the "Structure Box" on the page.
+
<StructureSection load='3hl2' size='340' side='right'caption='[[3hl2]], [[Resolution|resolution]] 2.81&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'>[[3hl2]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HL2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3HL2 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]] 2.81&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PLR:(5-HYDROXY-4,6-DIMETHYLPYRIDIN-3-YL)METHYL+DIHYDROGEN+PHOSPHATE'>PLR</scene>, <scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene>, <scene name='pdbligand=TS6:MONOTHIOPHOSPHATE'>TS6</scene></td></tr>
-
{{STRUCTURE_3hl2| PDB=3hl2 | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3hl2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3hl2 OCA], [https://pdbe.org/3hl2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3hl2 RCSB], [https://www.ebi.ac.uk/pdbsum/3hl2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3hl2 ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/SPCS_HUMAN SPCS_HUMAN]
 +
== 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/hl/3hl2_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=3hl2 ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Selenocysteine is the only genetically encoded amino acid in humans whose biosynthesis occurs on its cognate transfer RNA (tRNA). O-Phosphoseryl-tRNA:selenocysteinyl-tRNA synthase (SepSecS) catalyzes the final step of selenocysteine formation by a poorly understood tRNA-dependent mechanism. The crystal structure of human tRNA(Sec) in complex with SepSecS, phosphoserine, and thiophosphate, together with in vivo and in vitro enzyme assays, supports a pyridoxal phosphate-dependent mechanism of Sec-tRNA(Sec) formation. Two tRNA(Sec) molecules, with a fold distinct from other canonical tRNAs, bind to each SepSecS tetramer through their 13-base pair acceptor-TPsiC arm (where Psi indicates pseudouridine). The tRNA binding is likely to induce a conformational change in the enzyme's active site that allows a phosphoserine covalently attached to tRNA(Sec), but not free phosphoserine, to be oriented properly for the reaction to occur.
-
===The crystal structure of the human SepSecS-tRNASec complex===
+
The human SepSecS-tRNASec complex reveals the mechanism of selenocysteine formation.,Palioura S, Sherrer RL, Steitz TA, Soll D, Simonovic M Science. 2009 Jul 17;325(5938):321-5. PMID:19608919<ref>PMID:19608919</ref>
 +
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 +
</div>
 +
<div class="pdbe-citations 3hl2" style="background-color:#fffaf0;"></div>
-
<!--
+
==See Also==
-
The line below this paragraph, {{ABSTRACT_PUBMED_19608919}}, adds the Publication Abstract to the page
+
*[[Selenocysteine synthase|Selenocysteine synthase]]
-
(as it appears on PubMed at http://www.pubmed.gov), where 19608919 is the PubMed ID number.
+
*[[Transfer RNA (tRNA)|Transfer RNA (tRNA)]]
-
-->
+
== References ==
-
{{ABSTRACT_PUBMED_19608919}}
+
<references/>
-
 
+
__TOC__
-
==About this Structure==
+
</StructureSection>
-
3HL2 is a 5 chains structure of sequences from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3HL2 OCA].
+
-
 
+
-
==Reference==
+
-
<ref group="xtra">PMID:19608919</ref><references group="xtra"/>
+
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
-
[[Category: Palioura, S.]]
+
[[Category: Large Structures]]
-
[[Category: Simonovic, M]]
+
[[Category: Palioura S]]
-
[[Category: Soll, D.]]
+
[[Category: Simonovic M]]
-
[[Category: Steitz, T A.]]
+
[[Category: Soll D]]
-
[[Category: Alternative splicing]]
+
[[Category: Steitz TA]]
-
[[Category: Cytoplasm]]
+
-
[[Category: Protein biosynthesis]]
+
-
[[Category: Protein-rna complex]]
+
-
[[Category: Pyridoxal phosphate]]
+
-
[[Category: Selenium]]
+
-
[[Category: Selenocysteine]]
+
-
[[Category: Sepsec]]
+
-
[[Category: Transferase]]
+
-
[[Category: Trnasec]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Oct 7 13:58:10 2009''
+

Current revision

The crystal structure of the human SepSecS-tRNASec complex

PDB ID 3hl2

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/3hl2"
Personal tools