1iu9

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (06:02, 3 April 2024) (edit) (undo)
 
(14 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1iu9.jpg|left|200px]]
 
-
{{Structure
+
==Crystal structure of the C-terminal domain of aspartate racemase from Pyrococcus horikoshii OT3==
-
|PDB= 1iu9 |SIZE=350|CAPTION= <scene name='initialview01'>1iu9</scene>, resolution 2.04&Aring;
+
<StructureSection load='1iu9' size='340' side='right'caption='[[1iu9]], [[Resolution|resolution]] 2.04&Aring;' scene=''>
-
|SITE=
+
== Structural highlights ==
-
|LIGAND= <scene name='pdbligand=CA:CALCIUM ION'>CA</scene>
+
<table><tr><td colspan='2'>[[1iu9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_horikoshii_OT3 Pyrococcus horikoshii OT3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IU9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1IU9 FirstGlance]. <br>
-
|ACTIVITY= [http://en.wikipedia.org/wiki/Aspartate_racemase Aspartate racemase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.1.13 5.1.1.13]
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.04&#8491;</td></tr>
-
|GENE= pPH0670E ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=53953 Pyrococcus horikoshii])
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></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=1iu9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iu9 OCA], [https://pdbe.org/1iu9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1iu9 RCSB], [https://www.ebi.ac.uk/pdbsum/1iu9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1iu9 ProSAT]</span></td></tr>
-
 
+
</table>
-
'''Crystal structure of the C-terminal domain of aspartate racemase from Pyrococcus horikoshii OT3'''
+
== Function ==
-
 
+
[https://www.uniprot.org/uniprot/RACD_PYRHO RACD_PYRHO]
-
 
+
== Evolutionary Conservation ==
-
==Overview==
+
[[Image:Consurf_key_small.gif|200px|right]]
-
The X-ray crystal structure has revealed two similar alpha/beta domains of aspartate racemase (AspR) from Pyrococcus horikoshii OT3, and identified a pseudo mirror-symmetric distribution of the residues around its active site [Liu et al. (2002) J. Mol. Biol. 319, 479-489]. Structural homology and functional similarity between the two domains suggested that this enzyme evolved from an ancestral domain by gene duplication and gene fusion. We have expressed solely the C-terminal domain of this AspR and determined its three-dimensional structure by X-ray crystallography. The high structural stability of this domain supports the existence of the ancestral domain. In comparison with other amino acid racemases (AARs), we suggest that gene duplication and gene fusion are conventional ways in the evolution of pyridoxal 5'-phosphate-independent AARs.
+
Check<jmol>
-
 
+
<jmolCheckbox>
-
==About this Structure==
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/iu/1iu9_consurf.spt"</scriptWhenChecked>
-
1IU9 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Pyrococcus_horikoshii Pyrococcus horikoshii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IU9 OCA].
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
 
+
<text>to colour the structure by Evolutionary Conservation</text>
-
==Reference==
+
</jmolCheckbox>
-
Structural insight into gene duplication, gene fusion and domain swapping in the evolution of PLP-independent amino acid racemases., Liu L, Iwata K, Yohda M, Miki K, FEBS Lett. 2002 Sep 25;528(1-3):114-8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12297289 12297289]
+
</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=1iu9 ConSurf].
-
[[Category: Aspartate racemase]]
+
<div style="clear:both"></div>
-
[[Category: Pyrococcus horikoshii]]
+
__TOC__
-
[[Category: Single protein]]
+
</StructureSection>
-
[[Category: Iwata, K.]]
+
[[Category: Large Structures]]
-
[[Category: Liu, L.]]
+
[[Category: Pyrococcus horikoshii OT3]]
-
[[Category: Miki, K.]]
+
[[Category: Iwata K]]
-
[[Category: Yohda, M.]]
+
[[Category: Liu L]]
-
[[Category: CA]]
+
[[Category: Miki K]]
-
[[Category: aspartate racemase]]
+
[[Category: Yohda M]]
-
[[Category: c-terminal domain]]
+
-
[[Category: crystal structure]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 11:55:01 2008''
+

Current revision

Crystal structure of the C-terminal domain of aspartate racemase from Pyrococcus horikoshii OT3

PDB ID 1iu9

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/1iu9"
Personal tools