3bu7

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (05:43, 17 October 2024) (edit) (undo)
 
(9 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:3bu7.jpg|left|200px]]
 
-
<!--
+
==Crystal Structure and Biochemical Characterization of GDOsp, a Gentisate 1,2-Dioxygenase from Silicibacter Pomeroyi==
-
The line below this paragraph, containing "STRUCTURE_3bu7", creates the "Structure Box" on the page.
+
<StructureSection load='3bu7' size='340' side='right'caption='[[3bu7]], [[Resolution|resolution]] 2.80&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'>[[3bu7]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Ruegeria_pomeroyi_DSS-3 Ruegeria pomeroyi DSS-3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BU7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BU7 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]] 2.8&#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></td></tr>
-
{{STRUCTURE_3bu7| PDB=3bu7 | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3bu7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bu7 OCA], [https://pdbe.org/3bu7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bu7 RCSB], [https://www.ebi.ac.uk/pdbsum/3bu7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bu7 ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/Q5LLB1_RUEPO Q5LLB1_RUEPO]
 +
== 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/bu/3bu7_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=3bu7 ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Dioxygenases catalyze dioxygen incorporation into various organic compounds and play a key role in the complex degradation pathway of mono- and polycyclic aromatic and hetero-aromatic compounds. Here we report the crystal structure of gentisate 1,2-dioxygenase from Silicibacter pomeroyi (GDOsp) at a 2.8 A resolution. The enzyme possessed a conserved three-dimensional structure of the bicupin family, forming a homotetramerization. However, each subunit of GDOsp unusually contained two ferrous centers that were located in its two homologous cupin domains, respectively. Further mutagenic analysis indicated that the enzyme activity of GDOsp depends on the microenvironment in both metal-binding sites. Moreover, homologous structural comparison and functional study on GDOsp variants unveiled a group of functionally essential residues and suggested that the active site of the enzyme is located in the amino-terminal domain, but could be influenced by changes in the carboxyl domain. Therefore, GDOsp may provide a working model for studying long-distance communication within a protein (or its complex).
-
===Crystal Structure and Biochemical Characterization of GDOsp, a Gentisate 1,2-Dioxygenase from Silicibacter Pomeroyi===
+
Crystal structure and mutagenic analysis of GDOsp, a gentisate 1,2-dioxygenase from Silicibacter pomeroyi.,Chen J, Li W, Wang M, Zhu G, Liu D, Sun F, Hao N, Li X, Rao Z, Zhang XC Protein Sci. 2008 Aug;17(8):1362-73. Epub 2008 May 27. PMID:18505738<ref>PMID:18505738</ref>
-
 
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
<!--
+
</div>
-
The line below this paragraph, {{ABSTRACT_PUBMED_18505738}}, adds the Publication Abstract to the page
+
<div class="pdbe-citations 3bu7" style="background-color:#fffaf0;"></div>
-
(as it appears on PubMed at http://www.pubmed.gov), where 18505738 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_18505738}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
[[Category: Large Structures]]
-
3BU7 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Silicibacter_pomeroyi Silicibacter pomeroyi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BU7 OCA].
+
[[Category: Ruegeria pomeroyi DSS-3]]
-
 
+
[[Category: Chen J]]
-
==Reference==
+
[[Category: Rao ZH]]
-
Crystal structure and mutagenic analysis of GDOsp, a gentisate 1,2-dioxygenase from Silicibacter pomeroyi., Chen J, Li W, Wang M, Zhu G, Liu D, Sun F, Hao N, Li X, Rao Z, Zhang XC, Protein Sci. 2008 Aug;17(8):1362-73. Epub 2008 May 27. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18505738 18505738]
+
[[Category: Wang MZ]]
-
[[Category: Gentisate 1,2-dioxygenase]]
+
[[Category: Zhang XC]]
-
[[Category: Silicibacter pomeroyi]]
+
[[Category: Zhu GY]]
-
[[Category: Single protein]]
+
-
[[Category: Chen, J.]]
+
-
[[Category: Rao, Z H.]]
+
-
[[Category: Wang, M Z.]]
+
-
[[Category: Zhang, X C.]]
+
-
[[Category: Zhu, G Y.]]
+
-
[[Category: Cupin domain]]
+
-
[[Category: Dioxygenase]]
+
-
[[Category: Oxidoreductase]]
+
-
[[Category: Plasmid]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Aug 13 14:09:26 2008''
+

Current revision

Crystal Structure and Biochemical Characterization of GDOsp, a Gentisate 1,2-Dioxygenase from Silicibacter Pomeroyi

PDB ID 3bu7

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/3bu7"
Personal tools