1yi8

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (08:57, 14 February 2024) (edit) (undo)
 
(12 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1yi8.gif|left|200px]]
 
-
{{Structure
+
==Crystal structure of tryptophanyl trRNA synthetase II from Deinococcus radiodurans in complex with L-Trp==
-
|PDB= 1yi8 |SIZE=350|CAPTION= <scene name='initialview01'>1yi8</scene>, resolution 2.1&Aring;
+
<StructureSection load='1yi8' size='340' side='right'caption='[[1yi8]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
-
|SITE=
+
== Structural highlights ==
-
|LIGAND= <scene name='pdbligand=TRP:TRYPTOPHAN'>TRP</scene>
+
<table><tr><td colspan='2'>[[1yi8]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Deinococcus_radiodurans_R1 Deinococcus radiodurans R1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YI8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YI8 FirstGlance]. <br>
-
|ACTIVITY=
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#8491;</td></tr>
-
|GENE= DR1093 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243230 Deinococcus radiodurans R1])
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TRP:TRYPTOPHAN'>TRP</scene></td></tr>
-
|DOMAIN=
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1yi8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yi8 OCA], [https://pdbe.org/1yi8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yi8 RCSB], [https://www.ebi.ac.uk/pdbsum/1yi8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yi8 ProSAT]</span></td></tr>
-
|RELATEDENTRY=
+
</table>
-
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1yi8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yi8 OCA], [http://www.ebi.ac.uk/pdbsum/1yi8 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1yi8 RCSB]</span>
+
== Function ==
-
}}
+
[https://www.uniprot.org/uniprot/SYW2_DEIRA SYW2_DEIRA] Catalyzes the formation of 5'adenyl-Trp and tRNA(Trp) but with 5-fold less activity than TrpRS. Increases the solubility of the nitric oxide synthase oxygenase (nos), as well as its affinity for substrate L-arginine and its nitric-oxide synthase activity. The complex between trpS2 and nos catalyzes the regioselective nitration of tryptophan at the 4-position.
 +
== 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/yi/1yi8_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=1yi8 ConSurf].
 +
<div style="clear:both"></div>
-
'''Crystal structure of tryptophanyl trRNA synthetase II from Deinococcus radiodurans in complex with L-Trp'''
+
==See Also==
-
 
+
*[[Aminoacyl tRNA synthetase 3D structures|Aminoacyl tRNA synthetase 3D structures]]
-
 
+
__TOC__
-
==Overview==
+
</StructureSection>
-
The most divergent of two tryptophanyl tRNA synthetases (TrpRS II) found in Deinococcus radiodurans interacts with a nitric oxide synthase protein that produces 4-nitro-tryptophan (4-NRP). TrpRS II efficiently charges transfer RNA(Trp) with 4-NRP and 5-hydroxy-tryptophan (5-HRP). The crystal structures of TrpRS II bound to tryptophan and 5-HRP reveal residue substitutions that accommodate modified indoles. A class of auxiliary bacterial TrpRSs conserve this capacity to charge tRNA with nonstandard amino acids.
+
[[Category: Deinococcus radiodurans R1]]
-
 
+
[[Category: Large Structures]]
-
==About this Structure==
+
[[Category: Buddha MR]]
-
1YI8 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Deinococcus_radiodurans_r1 Deinococcus radiodurans r1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YI8 OCA].
+
[[Category: Crane BR]]
-
 
+
-
==Reference==
+
-
Structure and activity of an aminoacyl-tRNA synthetase that charges tRNA with nitro-tryptophan., Buddha MR, Crane BR, Nat Struct Mol Biol. 2005 Mar;12(3):274-5. Epub 2005 Feb 20. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15723076 15723076]
+
-
[[Category: Deinococcus radiodurans r1]]
+
-
[[Category: Single protein]]
+
-
[[Category: Buddha, M R.]]
+
-
[[Category: Crane, B R.]]
+
-
[[Category: auxiliary tryptophanyl trna synthetase]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 01:08:04 2008''
+

Current revision

Crystal structure of tryptophanyl trRNA synthetase II from Deinococcus radiodurans in complex with L-Trp

PDB ID 1yi8

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/1yi8"
Personal tools