2odj

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (08:23, 30 October 2024) (edit) (undo)
 
(7 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2odj.png|left|200px]]
 
-
{{STRUCTURE_2odj| PDB=2odj | SCENE= }}
+
==Crystal structure of the outer membrane protein OprD from Pseudomonas aeruginosa==
 +
<StructureSection load='2odj' size='340' side='right'caption='[[2odj]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[2odj]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_aeruginosa_PAO1 Pseudomonas aeruginosa PAO1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ODJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ODJ 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]] 2.9&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=C8E:(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE'>C8E</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</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=2odj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2odj OCA], [https://pdbe.org/2odj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2odj RCSB], [https://www.ebi.ac.uk/pdbsum/2odj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2odj ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/PORD_PSEAE PORD_PSEAE] Porin with a specificity for basic amino acids. Also possesses serine protease activity.<ref>PMID:2118530</ref> <ref>PMID:8843159</ref>
 +
== 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/od/2odj_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=2odj ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
OprD proteins form a large family of substrate-specific outer-membrane channels in Gram-negative bacteria. We report here the X-ray crystal structure of OprD from Pseudomonas aeruginosa, which reveals a monomeric 18-stranded beta-barrel characterized by a very narrow pore constriction, with a positively charged basic ladder on one side and an electronegative pocket on the other side. The location of highly conserved residues in OprD suggests that the structure represents the general architecture of OprD channels.
-
===Crystal structure of the outer membrane protein OprD from Pseudomonas aeruginosa===
+
Structural insight into OprD substrate specificity.,Biswas S, Mohammad MM, Patel DR, Movileanu L, van den Berg B Nat Struct Mol Biol. 2007 Nov;14(11):1108-9. Epub 2007 Oct 21. PMID:17952093<ref>PMID:17952093</ref>
-
{{ABSTRACT_PUBMED_17952093}}
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
 
+
</div>
-
==About this Structure==
+
<div class="pdbe-citations 2odj" style="background-color:#fffaf0;"></div>
-
[[2odj]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ODJ OCA].
+
==See Also==
==See Also==
-
*[[Porin|Porin]]
+
*[[Porin 3D structures|Porin 3D structures]]
-
 
+
== References ==
-
==Reference==
+
<references/>
-
<ref group="xtra">PMID:017952093</ref><references group="xtra"/>
+
__TOC__
-
[[Category: Pseudomonas aeruginosa]]
+
</StructureSection>
-
[[Category: Berg, B van den.]]
+
[[Category: Large Structures]]
-
[[Category: Biswas, S.]]
+
[[Category: Pseudomonas aeruginosa PAO1]]
-
[[Category: Amino acid transport]]
+
[[Category: Biswas S]]
-
[[Category: Beta-barrel]]
+
[[Category: Van den Berg B]]
-
[[Category: Membrane protein]]
+
-
[[Category: Outer membrane protein]]
+

Current revision

Crystal structure of the outer membrane protein OprD from Pseudomonas aeruginosa

PDB ID 2odj

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/2odj"
Personal tools