2pgf

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (05:25, 17 October 2024) (edit) (undo)
 
(15 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2pgf.gif|left|200px]]<br /><applet load="2pgf" size="350" color="white" frame="true" align="right" spinBox="true"
 
-
caption="2pgf, resolution 1.89&Aring;" />
 
-
'''Crystal structure of adenosine deaminase from Plasmodium vivax in complex with adenosine'''<br />
 
-
==About this Structure==
+
==Crystal structure of adenosine deaminase from Plasmodium vivax in complex with adenosine==
-
2PGF is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Plasmodium_vivax Plasmodium vivax] with <scene name='pdbligand=ZN:'>ZN</scene>, <scene name='pdbligand=ADN:'>ADN</scene> and <scene name='pdbligand=CCN:'>CCN</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Adenosine_deaminase Adenosine deaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.4.4 3.5.4.4] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PGF OCA].
+
<StructureSection load='2pgf' size='340' side='right'caption='[[2pgf]], [[Resolution|resolution]] 1.89&Aring;' scene=''>
-
[[Category: Adenosine deaminase]]
+
== Structural highlights ==
-
[[Category: Plasmodium vivax]]
+
<table><tr><td colspan='2'>[[2pgf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Plasmodium_vivax Plasmodium vivax]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PGF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PGF FirstGlance]. <br>
-
[[Category: Protein complex]]
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.89&#8491;</td></tr>
-
[[Category: Larson, E T.]]
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADN:ADENOSINE'>ADN</scene>, <scene name='pdbligand=CCN:ACETONITRILE'>CCN</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-
[[Category: Merritt, E A.]]
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2pgf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pgf OCA], [https://pdbe.org/2pgf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2pgf RCSB], [https://www.ebi.ac.uk/pdbsum/2pgf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2pgf ProSAT]</span></td></tr>
-
[[Category: SGPP, Structural Genomics of Pathogenic Protozoa Consortium.]]
+
</table>
-
[[Category: ADN]]
+
== Function ==
-
[[Category: CCN]]
+
[https://www.uniprot.org/uniprot/ADA_PLAVS ADA_PLAVS] Catalyzes the hydrolytic deamination of adenosine to produce inosine (PubMed:19728741). Unlike mammalian adenosine deaminases, also catalyzes the deamination of 5'-methylthioadenosine (MTA), a by-product of polyamine biosynthesis, to produce 5'-methylthioinosine (MTI) (PubMed:19728741). Plays an essential role in the purine salvage pathway which allows the parasite to use host cell purines for the synthesis of nucleic acids (PubMed:19728741).<ref>PMID:19728741</ref>
-
[[Category: ZN]]
+
== Evolutionary Conservation ==
-
[[Category: medical structural genomics of pathogenic protozoa consortium]]
+
[[Image:Consurf_key_small.gif|200px|right]]
-
[[Category: metallo-dependent hydrolase]]
+
Check<jmol>
-
[[Category: msgpp]]
+
<jmolCheckbox>
-
[[Category: protein structure initiative]]
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pg/2pgf_consurf.spt"</scriptWhenChecked>
-
[[Category: psi]]
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
-
[[Category: sgpp]]
+
<text>to colour the structure by Evolutionary Conservation</text>
-
[[Category: structural genomics]]
+
</jmolCheckbox>
-
[[Category: structural genomics of pathogenic protozoa consortium]]
+
</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=2pgf ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Plasmodium and other apicomplexan parasites are deficient in purine biosynthesis, relying instead on the salvage of purines from their host environment. Therefore, interference with the purine salvage pathway is an attractive therapeutic target. The plasmodial enzyme adenosine deaminase (ADA) plays a central role in purine salvage and, unlike mammalian ADA homologs, has a further secondary role in methylthiopurine recycling. For this reason, plasmodial ADA accepts a wider range of substrates, as it is responsible for deamination of both adenosine and 5'-methylthioadenosine. The latter substrate is not accepted by mammalian ADA homologs. The structural basis for this natural difference in specificity between plasmodial and mammalian ADA has not been well understood. We now report crystal structures of Plasmodium vivax ADA in complex with adenosine, guanosine, and the picomolar inhibitor 2'-deoxycoformycin. These structures highlight a drastic conformational change in plasmodial ADA upon substrate binding that has not been observed for mammalian ADA enzymes. Further, these complexes illuminate the structural basis for the differential substrate specificity and potential drug selectivity between mammalian and parasite enzymes.
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 18:29:09 2008''
+
Structures of substrate- and inhibitor-bound adenosine deaminase from a human malaria parasite show a dramatic conformational change and shed light on drug selectivity.,Larson ET, Deng W, Krumm BE, Napuli A, Mueller N, Van Voorhis WC, Buckner FS, Fan E, Lauricella A, DeTitta G, Luft J, Zucker F, Hol WG, Verlinde CL, Merritt EA J Mol Biol. 2008 Sep 12;381(4):975-88. Epub 2008 Jun 24. PMID:18602399<ref>PMID:18602399</ref>
 +
 
 +
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 +
</div>
 +
<div class="pdbe-citations 2pgf" style="background-color:#fffaf0;"></div>
 +
 
 +
==See Also==
 +
*[[Adenosine deaminase|Adenosine deaminase]]
 +
*[[Adenosine deaminase 3D structures|Adenosine deaminase 3D structures]]
 +
== References ==
 +
<references/>
 +
__TOC__
 +
</StructureSection>
 +
[[Category: Large Structures]]
 +
[[Category: Plasmodium vivax]]
 +
[[Category: Larson ET]]
 +
[[Category: Merritt EA]]

Current revision

Crystal structure of adenosine deaminase from Plasmodium vivax in complex with adenosine

PDB ID 2pgf

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools