This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


2w0q

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (11:50, 30 March 2022) (edit) (undo)
 
(8 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:2w0q.png|left|200px]]
 
-
<!--
+
==E. coli copper amine oxidase in complex with Xenon==
-
The line below this paragraph, containing "STRUCTURE_2w0q", creates the "Structure Box" on the page.
+
<StructureSection load='2w0q' size='340' side='right'caption='[[2w0q]], [[Resolution|resolution]] 2.48&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'>[[2w0q]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W0Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2W0Q FirstGlance]. <br>
-
or leave the SCENE parameter empty for the default display.
+
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=XE:XENON'>XE</scene></td></tr>
-
-->
+
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=TPQ:5-(2-CARBOXY-2-AMINOETHYL)-2-HYDROXY-1,4-BENZOQUINONE'>TPQ</scene></td></tr>
-
{{STRUCTURE_2w0q| PDB=2w0q | SCENE= }}
+
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1dyu|1dyu]], [[1oac|1oac]], [[1qak|1qak]], [[1qal|1qal]], [[1d6u|1d6u]], [[1spu|1spu]], [[1jrq|1jrq]], [[1qaf|1qaf]], [[1d6y|1d6y]], [[1lvn|1lvn]], [[1d6z|1d6z]]</div></td></tr>
 +
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Monoamine_oxidase Monoamine oxidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.4.3.4 1.4.3.4] </span></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=2w0q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w0q OCA], [https://pdbe.org/2w0q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2w0q RCSB], [https://www.ebi.ac.uk/pdbsum/2w0q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2w0q ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[[https://www.uniprot.org/uniprot/AMO_ECOLI AMO_ECOLI]] The enzyme prefers aromatic over aliphatic amines.
 +
== 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/w0/2w0q_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=2w0q ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
The mechanism of molecular oxygen entry into the buried active site of the copper amine oxidase family has been investigated in several family members using biochemical, structural and in silico methods. These studies have revealed a structurally conserved beta-sandwich which acts as a hydrophobic reservoir from which molecular oxygen can take several species-specific preferred pathways to the active site. Escherichia coli copper amine oxidase (ECAO) possesses an extra N-terminal domain that lies close to one entrance to the beta-sandwich. In order to investigate whether the presence of this domain alters molecular oxygen entry in this enzyme, xenon was used as a molecular oxygen binding-site probe. The resulting 2.5 A resolution X-ray crystal structure reveals xenon bound in similar positions to those observed in xenon-derivative crystal structures of other family members, suggesting that the N-terminal domain does not affect oxygen entry and that the E. coli enzyme takes up oxygen in a similar manner to the rest of the copper amine oxidase family.
-
===E. COLI COPPER AMINE OXIDASE IN COMPLEX WITH XENON===
+
Structure of a xenon derivative of Escherichia coli copper amine oxidase: confirmation of the proposed oxygen-entry pathway.,Pirrat P, Smith MA, Pearson AR, McPherson MJ, Phillips SE Acta Crystallogr Sect F Struct Biol Cryst Commun. 2008 Dec 1;64(Pt, 12):1105-9. Epub 2008 Nov 28. PMID:19052360<ref>PMID:19052360</ref>
 +
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 +
</div>
 +
<div class="pdbe-citations 2w0q" style="background-color:#fffaf0;"></div>
-
<!--
+
==See Also==
-
The line below this paragraph, {{ABSTRACT_PUBMED_19052360}}, adds the Publication Abstract to the page
+
*[[Copper amine oxidase 3D structures|Copper amine oxidase 3D structures]]
-
(as it appears on PubMed at http://www.pubmed.gov), where 19052360 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_19052360}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
[[Category: Bacillus coli migula 1895]]
-
2W0Q is a 2 chains structure with sequences from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W0Q OCA].
+
[[Category: Large Structures]]
-
 
+
-
==Reference==
+
-
<ref group="xtra">PMID:19052360</ref><references group="xtra"/>
+
-
[[Category: Escherichia coli]]
+
[[Category: Monoamine oxidase]]
[[Category: Monoamine oxidase]]
-
[[Category: McPherson, M J.]]
+
[[Category: McPherson, M J]]
-
[[Category: Pearson, A R.]]
+
[[Category: Pearson, A R]]
-
[[Category: Phillips, S E.V.]]
+
[[Category: Phillips, S E.V]]
-
[[Category: Pirrat, P.]]
+
[[Category: Pirrat, P]]
-
[[Category: Smith, M A.]]
+
[[Category: Smith, M A]]
[[Category: Calcium]]
[[Category: Calcium]]
[[Category: Copper]]
[[Category: Copper]]
Line 41: Line 56:
[[Category: Tpq]]
[[Category: Tpq]]
[[Category: Xenon]]
[[Category: Xenon]]
- 
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 22 11:45:31 2010''
 

Current revision

E. coli copper amine oxidase in complex with Xenon

PDB ID 2w0q

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/2w0q"
Personal tools