3r87

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (10:52, 21 February 2024) (edit) (undo)
 
(2 intermediate revisions not shown.)
Line 1: Line 1:
 +
==Crystal Structure of Orf6 protein from Photobacterium profundum==
==Crystal Structure of Orf6 protein from Photobacterium profundum==
-
<StructureSection load='3r87' size='340' side='right' caption='[[3r87]], [[Resolution|resolution]] 1.05&Aring;' scene=''>
+
<StructureSection load='3r87' size='340' side='right'caption='[[3r87]], [[Resolution|resolution]] 1.05&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[3r87]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Photobacterium_profundum Photobacterium profundum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3R87 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3R87 FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[3r87]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Photobacterium_profundum Photobacterium profundum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3R87 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3R87 FirstGlance]. <br>
-
</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3r87 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3r87 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3r87 RCSB], [http://www.ebi.ac.uk/pdbsum/3r87 PDBsum]</span></td></tr>
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.05&#8491;</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=3r87 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3r87 OCA], [https://pdbe.org/3r87 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3r87 RCSB], [https://www.ebi.ac.uk/pdbsum/3r87 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3r87 ProSAT]</span></td></tr>
</table>
</table>
-
<div style="background-color:#fffaf0;">
+
== Function ==
-
== Publication Abstract from PubMed ==
+
[https://www.uniprot.org/uniprot/Q93CG9_9GAMM Q93CG9_9GAMM]
-
Thioesterase activity is typically required for the release of products from polyketide synthase enzymes, but no such enzyme has been characterized in deep-sea bacteria associated with the production of polyunsaturated fatty acids (PUFAs). In this work we have expressed and purified the Orf6 thioesterase from Photobacterium profundum. Enzyme assays reveal that Orf6 has a higher specific activity towards long-chain fatty acyl-CoA substrates (palmitoyl-CoA and eicosapentaenoyl-CoA) than towards short-chain or aromatic acyl-CoA substrates. We determined a high resolution (1.05 angstrom) structure of Orf6 that revealed a hotdog hydrolase fold arranged as a dimer of dimers. The putative active site of this structure was occupied by additional electron density not accounted for by the protein sequence, consistent with the presence of an elongated compound. A second crystal structure (1.40 angstrom) was obtained from a crystal that was grown in the presence of Mg2+, which revealed the presence of a binding site for divalent cations at a crystal contact. The Mg2+-bound structure showed localized conformational changes (RMSD = 1.63 angstrom), and its active site was unoccupied, suggesting a mechanism to open the active site for substrate entry or product release. These findings reveal a new thioesterase enzyme with a preference for long-chain CoA substrates in deep-sea bacteria which are being developed for bioremediation and for the production of biofuels.
+
-
 
+
-
Structure, activity and substrate selectivity of the Orf6 thioesterase from Photobacterium profundum.,Rodriguez-Guilbe M, Oyola-Robles D, Schreiter ER, Baerga-Ortiz A J Biol Chem. 2013 Feb 21. PMID:23430744<ref>PMID:23430744</ref>
+
-
 
+
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+
-
</div>
+
-
== References ==
+
-
<references/>
+
__TOC__
__TOC__
</StructureSection>
</StructureSection>
 +
[[Category: Large Structures]]
[[Category: Photobacterium profundum]]
[[Category: Photobacterium profundum]]
-
[[Category: Ortiz, A Baerga]]
+
[[Category: Baerga Ortiz A]]
-
[[Category: Rodriguez-Guilbe, M M]]
+
[[Category: Rodriguez-Guilbe MM]]
-
[[Category: Schreiter, E R]]
+
[[Category: Schreiter ER]]
-
[[Category: Unknown function]]
+

Current revision

Crystal Structure of Orf6 protein from Photobacterium profundum

PDB ID 3r87

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/3r87"
Personal tools