1o5t

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (23:46, 27 December 2023) (edit) (undo)
 
(11 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:1o5t.png|left|200px]]
 
-
<!--
+
==Crystal structure of the aminoacylation catalytic fragment of human tryptophanyl-tRNA synthetase==
-
The line below this paragraph, containing "STRUCTURE_1o5t", creates the "Structure Box" on the page.
+
<StructureSection load='1o5t' size='340' side='right'caption='[[1o5t]], [[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'>[[1o5t]] is a 1 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=1O5T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1O5T 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='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1o5t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1o5t OCA], [https://pdbe.org/1o5t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1o5t RCSB], [https://www.ebi.ac.uk/pdbsum/1o5t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1o5t ProSAT]</span></td></tr>
-
{{STRUCTURE_1o5t| PDB=1o5t | SCENE= }}
+
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/SYWC_HUMAN SYWC_HUMAN] Isoform 1, isoform 2 and T1-TrpRS have aminoacylation activity while T2-TrpRS lacks it. Isoform 2, T1-TrpRS and T2-TrpRS possess angiostatic activity whereas isoform 1 lacks it. T2-TrpRS inhibits fluid shear stress-activated responses of endothelial cells. Regulates ERK, Akt, and eNOS activation pathways that are associated with angiogenesis, cytoskeletal reorganization and shear stress-responsive gene expression.<ref>PMID:11773626</ref> <ref>PMID:1373391</ref> <ref>PMID:11773625</ref> <ref>PMID:14630953</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/o5/1o5t_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=1o5t ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Human tryptophanyl-tRNA synthetase (hTrpRS) produces a full-length and three N terminus-truncated forms through alternative splicing and proteolysis. The shortest fragment that contains the aminoacylation catalytic fragment (T2-hTrpRS) exhibits the most potent angiostatic activity. We report here the crystal structure of T2-hTrpRS at 2.5 A resolution, which was solved using the multi-wavelength anomalous diffraction method. T2-hTrpRS shares a very low sequence homology of 22% with Bacillus stearothermophilus TrpRS (bTrpRS); however, their overall structures are strikingly similar. Structural comparison of T2-hTrpRS with bTrpRS reveals substantial structural differences in the substrate-binding pocket and at the entrance to the pocket that play important roles in substrate binding and tRNA binding. T2-hTrpRS has a wide opening to the active site and adopts a compact conformation similar to the closed conformation of bTrpRS. These results suggest that mammalian and bacterial TrpRSs might use different mechanisms to recognize the substrate. Modeling studies indicate that tRNA binds with the dimeric enzyme and interacts primarily with the connective polypeptide 1 of hTrpRS via its acceptor arm and the alpha-helical domain of hTrpRS via its anticodon loop. Our results also suggest that the angiostatic activity is likely located at the alpha-helical domain, which resembles the short chain cytokines.
-
===Crystal structure of the aminoacylation catalytic fragment of human tryptophanyl-tRNA synthetase===
+
Crystal structure of human tryptophanyl-tRNA synthetase catalytic fragment: insights into substrate recognition, tRNA binding, and angiogenesis activity.,Yu Y, Liu Y, Shen N, Xu X, Xu F, Jia J, Jin Y, Arnold E, Ding J J Biol Chem. 2004 Feb 27;279(9):8378-88. Epub 2003 Dec 5. PMID:14660560<ref>PMID:14660560</ref>
 +
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 +
</div>
 +
<div class="pdbe-citations 1o5t" style="background-color:#fffaf0;"></div>
-
<!--
+
==See Also==
-
The line below this paragraph, {{ABSTRACT_PUBMED_14660560}}, adds the Publication Abstract to the page
+
*[[Aminoacyl tRNA synthetase 3D structures|Aminoacyl tRNA synthetase 3D structures]]
-
(as it appears on PubMed at http://www.pubmed.gov), where 14660560 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_14660560}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
-
1O5T is a [[Single protein]] structure of sequence 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=1O5T OCA].
+
-
 
+
-
==Reference==
+
-
Crystal structure of human tryptophanyl-tRNA synthetase catalytic fragment: insights into substrate recognition, tRNA binding, and angiogenesis activity., Yu Y, Liu Y, Shen N, Xu X, Xu F, Jia J, Jin Y, Arnold E, Ding J, J Biol Chem. 2004 Feb 27;279(9):8378-88. Epub 2003 Dec 5. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/14660560 14660560]
+
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
-
[[Category: Single protein]]
+
[[Category: Large Structures]]
-
[[Category: Tryptophan--tRNA ligase]]
+
[[Category: Arnold E]]
-
[[Category: Arnold, E.]]
+
[[Category: Ding J]]
-
[[Category: Ding, J.]]
+
[[Category: Jia J]]
-
[[Category: Jia, J.]]
+
[[Category: Jin Y]]
-
[[Category: Jin, Y.]]
+
[[Category: Liu Y]]
-
[[Category: Liu, Y.]]
+
[[Category: Shen N]]
-
[[Category: Shen, N.]]
+
[[Category: Xu X]]
-
[[Category: Xu, X.]]
+
[[Category: Yu Y]]
-
[[Category: Yu, Y.]]
+
-
[[Category: Four helix bundle]]
+
-
[[Category: Rossmann fold]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat Jul 5 16:18:03 2008''
+

Current revision

Crystal structure of the aminoacylation catalytic fragment of human tryptophanyl-tRNA synthetase

PDB ID 1o5t

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/1o5t"
Personal tools