2hyo: Difference between revisions

← Older edit

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-{{Seed}}
-[[Image:2hyo.png|left|200px]]
-<!--
+==Crystal structure of Rv0805 N97A mutant==
-The line below this paragraph, containing "STRUCTURE_2hyo", creates the "Structure Box" on the page.
+<StructureSection load='2hyo' size='340' side='right'caption='[[2hyo]], [[Resolution|resolution]] 2.25&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[2hyo]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis_H37Rv Mycobacterium tuberculosis H37Rv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HYO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2HYO FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.25&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
-{{STRUCTURE_2hyo|  PDB=2hyo  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2hyo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2hyo OCA], [https://pdbe.org/2hyo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2hyo RCSB], [https://www.ebi.ac.uk/pdbsum/2hyo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2hyo ProSAT]</span></td></tr>
+</table>
-===Crystal structure of Rv0805 N97A mutant===
+== Function ==
+[https://www.uniprot.org/uniprot/CNPD3_MYCTU CNPD3_MYCTU] Cyclic nucleotide phosphodiesterase with a dual-specificity for the second messengers cAMP and cGMP (PubMed:16313172, PubMed:18757371). Can use 2',3'-cAMP, 2',3'-cGMP, 3',5'-cAMP, 3',5'-cGMP and 3',5'-cUMP (PubMed:16313172, PubMed:18757371, PubMed:19801656). Hydrolysis of 2',3'-cAMP produces a mixture of 3'-AMP (major product) and 2'-AMP (minor product) (PubMed:18757371). In vitro, is 150-fold more active in hydrolyzing 2',3'-cAMP than 3',5'-cAMP (PubMed:18757371). Can also hydrolyze the model substrates p-nitrophenyl phosphate (pNPP), bis-(p-nitrophenyl phosphate) (bis(pNPP)) and p-nitrophenyl phenylphosphonate (pNPPP) (PubMed:16313172, PubMed:18757371, PubMed:19801656). Plays an important regulatory role in modulating the intracellular concentration of cAMP, thereby influencing cAMP-dependent processes (PubMed:16313172). May play a role in pathogenicity, not only by hydrolyzing cAMP, but also by altering properties of the cell wall (PubMed:19801656).<ref>PMID:16313172</ref> <ref>PMID:18757371</ref> <ref>PMID:19801656</ref>   Overexpression elicits a transcriptional response that is independent of the phosphodiesterase activity. It does not alter the levels of cAMP-CRP regulated genes, even though cAMP levels are reduced in cells.<ref>PMID:23835087</ref>
+== Evolutionary Conservation ==
-<!--
+[[Image:Consurf_key_small.gif|200px|right]]
-The line below this paragraph, {{ABSTRACT_PUBMED_17059828}}, adds the Publication Abstract to the page
+Check<jmol>
-(as it appears on PubMed at http://www.pubmed.gov), where 17059828 is the PubMed ID number.
+  <jmolCheckbox>
--->
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/hy/2hyo_consurf.spt"</scriptWhenChecked>
-{{ABSTRACT_PUBMED_17059828}}
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
-==About this Structure==
+  </jmolCheckbox>
-HYO is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2HYO OCA].
+</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=2hyo ConSurf].
+<div style="clear:both"></div>
-==Reference==
+== References ==
-<ref group="xtra">PMID:17059828</ref><references group="xtra"/>
+<references/>
-[[Category: 3',5'-cyclic-nucleotide phosphodiesterase]]
+__TOC__
-[[Category: Mycobacterium tuberculosis]]
+</StructureSection>
-[[Category: Capuder, M.]]
+[[Category: Large Structures]]
-[[Category: Draskovic, P.]]
+[[Category: Mycobacterium tuberculosis H37Rv]]
-[[Category: Lamba, D.]]
+[[Category: Capuder M]]
-[[Category: Podobnik, M.]]
+[[Category: Draskovic P]]
-[[Category: Shenoy, A R.]]
+[[Category: Lamba D]]
-[[Category: Visweswariah, S S.]]
+[[Category: Podobnik M]]
-[[Category: Bi-nuclear active site]]
+[[Category: Shenoy AR]]
-[[Category: Camp]]
+[[Category: Visweswariah SS]]
-[[Category: Metallophosphoesterase]]
-[[Category: Phosphodiesterase]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 20:55:37 2009''