1p5j: Difference between revisions

From Proteopedia
Jump to navigationJump to search
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
New page: left|200px<br /> <applet load="1p5j" size="450" color="white" frame="true" align="right" spinBox="true" caption="1p5j, resolution 2.5Å" /> '''Crystal Structure An...
 
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,331,613 edits
No edit summary
 
(17 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[Image:1p5j.gif|left|200px]]<br />
<applet load="1p5j" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1p5j, resolution 2.5&Aring;" />
'''Crystal Structure Analysis of Human Serine Dehydratase'''<br />


==Overview==
==Crystal Structure Analysis of Human Serine Dehydratase==
L-Serine dehydratase (SDH) catalyzes the pyridoxal phosphate (PLP), dependent deamination of L-serine to yield pyruvate. Recombinant human, serine dehydratase was crystallized by the hanging-drop vapour-diffusion, method. Crystals were grown at 291 K using (NH4)(2)SO4 as precipitant., Diffraction data were obtained to a resolution of 2.5 A from a single, frozen crystal using Cu Kalpha radiation. The crystal belongs to space, group I422, with unit-cell parameters a = 157.4, b = 157.4, c = 59.2 A, alpha = beta = gamma = 90 degrees. The asymmetric unit contains one, molecule and has a solvent content of about 46%.
<StructureSection load='1p5j' size='340' side='right'caption='[[1p5j]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1p5j]] 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=1P5J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1P5J FirstGlance]. <br>
</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='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</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=1p5j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1p5j OCA], [https://pdbe.org/1p5j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1p5j RCSB], [https://www.ebi.ac.uk/pdbsum/1p5j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1p5j ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/SDHL_HUMAN SDHL_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/p5/1p5j_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=1p5j ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
L-Serine dehydratase (SDH) catalyzes the pyridoxal phosphate (PLP) dependent deamination of L-serine to yield pyruvate. Recombinant human serine dehydratase was crystallized by the hanging-drop vapour-diffusion method. Crystals were grown at 291 K using (NH4)(2)SO4 as precipitant. Diffraction data were obtained to a resolution of 2.5 A from a single frozen crystal using Cu Kalpha radiation. The crystal belongs to space group I422, with unit-cell parameters a = 157.4, b = 157.4, c = 59.2 A, alpha = beta = gamma = 90 degrees. The asymmetric unit contains one molecule and has a solvent content of about 46%.


==Disease==
Crystallization and preliminary crystallographic analysis of human serine dehydratase.,Sun L, Li X, Dong Y, Yang M, Liu Y, Han X, Zhang X, Pang H, Rao Z Acta Crystallogr D Biol Crystallogr. 2003 Dec;59(Pt 12):2297-9. Epub 2003, Nov 27. PMID:14646100<ref>PMID:14646100</ref>
Known diseases associated with this structure: Paraganglioma, familial chromaffin, 4 OMIM:[[http://www.ncbi.nlm.nih.gov/entrez/dispomim.cgi?id=185470 185470]], Pheochromocytoma OMIM:[[http://www.ncbi.nlm.nih.gov/entrez/dispomim.cgi?id=185470 185470]], Shwachman-Bodian-Diamond syndrome OMIM:[[http://www.ncbi.nlm.nih.gov/entrez/dispomim.cgi?id=607444 607444]]


==About this Structure==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
1P5J is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] with PLP as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/L-serine_ammonia-lyase L-serine ammonia-lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.1.17 4.3.1.17] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1P5J OCA].
</div>
<div class="pdbe-citations 1p5j" style="background-color:#fffaf0;"></div>


==Reference==
==See Also==
Crystallization and preliminary crystallographic analysis of human serine dehydratase., Sun L, Li X, Dong Y, Yang M, Liu Y, Han X, Zhang X, Pang H, Rao Z, Acta Crystallogr D Biol Crystallogr. 2003 Dec;59(Pt 12):2297-9. Epub 2003, Nov 27. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=14646100 14646100]
*[[Deaminase 3D structures|Deaminase 3D structures]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
[[Category: L-serine ammonia-lyase]]
[[Category: Large Structures]]
[[Category: Single protein]]
[[Category: Liu Y]]
[[Category: Liu, Y.]]
[[Category: Rao Z]]
[[Category: Rao, Z.]]
[[Category: Sun L]]
[[Category: Sun, L.]]
[[Category: PLP]]
[[Category: lyase]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov 12 18:40:21 2007''
Retrieved from "https://proteopedia.org/1p5j"