We apologize for Proteopedia being slow to respond. For the past two years, a new implementation of Proteopedia has been being built. Soon, it will replace this 18-year old system. All existing content will be moved to the new system at a date that will be announced here.

1y0z

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /> <applet load="1y0z" size="450" color="white" frame="true" align="right" spinBox="true" caption="1y0z, resolution 2.40&Aring;" /> '''X-ray structure of ...)
Current revision (08:54, 14 February 2024) (edit) (undo)
 
(15 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1y0z.gif|left|200px]]<br />
 
-
<applet load="1y0z" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1y0z, resolution 2.40&Aring;" />
 
-
'''X-ray structure of gene product from Arabidopsis thaliana At3g21360'''<br />
 
-
==Overview==
+
==X-ray structure of gene product from Arabidopsis thaliana At3g21360==
-
The crystal structure of the gene product of At3g21360 from Arabidopsis, thaliana was determined by the single-wavelength anomalous dispersion, method and refined to an R factor of 19.3% (Rfree = 24.1%) at 2.4 A, resolution. The crystal structure includes two monomers in the asymmetric, unit that differ in the conformation of a flexible domain that spans, residues 178-230. The crystal structure confirmed that At3g21360 encodes a, protein belonging to the clavaminate synthase-like superfamily of iron(II), and 2-oxoglutarate-dependent enzymes. The metal-binding site was defined, and is similar to the iron(II) binding sites found in other members of the, superfamily.
+
<StructureSection load='1y0z' size='340' side='right'caption='[[1y0z]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
-
 
+
== Structural highlights ==
-
==About this Structure==
+
<table><tr><td colspan='2'>[[1y0z]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Y0Z OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Y0Z FirstGlance]. <br>
-
1Y0Z is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Arabidopsis_thaliana Arabidopsis thaliana] with SO4 and FE2 as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1Y0Z OCA].
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4&#8491;</td></tr>
-
 
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-
==Reference==
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1y0z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1y0z OCA], [https://pdbe.org/1y0z PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1y0z RCSB], [https://www.ebi.ac.uk/pdbsum/1y0z PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1y0z ProSAT], [https://www.topsan.org/Proteins/CESG/1y0z TOPSAN]</span></td></tr>
-
The structure at 2.4 A resolution of the protein from gene locus At3g21360, a putative Fe(II)/2-oxoglutarate-dependent enzyme from Arabidopsis thaliana., Bitto E, Bingman CA, Allard ST, Wesenberg GE, Aceti DJ, Wrobel RL, Frederick RO, Sreenath H, Vojtik FC, Jeon WB, Newman CS, Primm J, Sussman MR, Fox BG, Markley JL, Phillips GN Jr, Acta Crystallograph Sect F Struct Biol Cryst Commun. 2005 May 1;61(Pt, 5):469-72. Epub 2005 Apr 26. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16511070 16511070]
+
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/Y3136_ARATH Y3136_ARATH]
 +
== 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/y0/1y0z_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=1y0z ConSurf].
 +
<div style="clear:both"></div>
 +
__TOC__
 +
</StructureSection>
[[Category: Arabidopsis thaliana]]
[[Category: Arabidopsis thaliana]]
-
[[Category: Single protein]]
+
[[Category: Large Structures]]
-
[[Category: Allard, S.T.M.]]
+
[[Category: Allard STM]]
-
[[Category: Bingman, C.A.]]
+
[[Category: Bingman CA]]
-
[[Category: Bitto, E.]]
+
[[Category: Bitto E]]
-
[[Category: CESG, Center.for.Eukaryotic.Structural.Genomics.]]
+
[[Category: Phillips Jr GN]]
-
[[Category: Jr., G.N.Phillips.]]
+
[[Category: Wesenberg GE]]
-
[[Category: Wesenberg, G.E.]]
+
-
[[Category: FE2]]
+
-
[[Category: SO4]]
+
-
[[Category: at3g21360]]
+
-
[[Category: center for eukaryotic structural genomics]]
+
-
[[Category: cesg]]
+
-
[[Category: protein structure initiative]]
+
-
[[Category: psi]]
+
-
[[Category: structural genomics]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Thu Nov 8 12:45:20 2007''
+

Current revision

X-ray structure of gene product from Arabidopsis thaliana At3g21360

PDB ID 1y0z

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/1y0z"
Personal tools