3l45

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Line 1: Line 1:
-
{{STRUCTURE_3l45| PDB=3l45 | SCENE= }}
+
==A Joint Neutron and X-ray structure of Oxidized Amicyanin==
-
===A Joint Neutron and X-ray structure of Oxidized Amicyanin===
+
<StructureSection load='3l45' size='340' side='right' caption='[[3l45]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
-
{{ABSTRACT_PUBMED_20351252}}
+
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[3l45]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Paracoccus_denitrificans Paracoccus denitrificans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3L45 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3L45 FirstGlance]. <br>
 +
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=DOD:DEUTERATED+WATER'>DOD</scene></td></tr>
 +
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1aac|1aac]], [[1bxa|1bxa]]</td></tr>
 +
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ami, mauC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=266 Paracoccus denitrificans])</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=3l45 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3l45 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3l45 RCSB], [http://www.ebi.ac.uk/pdbsum/3l45 PDBsum]</span></td></tr>
 +
</table>
 +
== 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/l4/3l45_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/chain_selection.php?pdb_ID=2ata ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
The joint x-ray/neutron diffraction model of the Type I copper protein, amicyanin from Paracoccus denitrificans was determined at 1.8 A resolution. The protein was crystallized using reagents prepared in D(2)O. About 86% of the amide hydrogen atoms are either partially or fully exchanged, which correlates well with the atomic depth of the amide nitrogen atom and the secondary structure type, but with notable exceptions. Each of the four residues that provide copper ligands is partially deuterated. The model reveals the dynamic nature of the protein, especially around the copper-binding site. A detailed analysis of the presence of deuterated water molecules near the exchange sites indicates that amide hydrogen exchange is primarily due to the flexibility of the protein. Analysis of the electron transfer path through the protein shows that residues in that region are highly dynamic, as judged by hydrogen/deuterium exchange. This could increase the rate of electron transfer by transiently shortening through-space jumps in pathways or by increasing the atomic packing density. Analysis of C-HX bonding reveals previously undefined roles of these relatively weak H bonds, which, when present in sufficient number can collectively influence the structure, redox, and electron transfer properties of amicyanin.
-
==Function==
+
A joint x-ray and neutron study on amicyanin reveals the role of protein dynamics in electron transfer.,Sukumar N, Mathews FS, Langan P, Davidson VL Proc Natl Acad Sci U S A. 2010 Apr 13;107(15):6817-22. Epub 2010 Mar 29. PMID:20351252<ref>PMID:20351252</ref>
-
[[http://www.uniprot.org/uniprot/AMCY_PARDE AMCY_PARDE]] Primary acceptor of electrons from methylamine dehydrogenase. Passes those electrons on either a soluble cytochrome c or to pseudoazurin.
+
-
==About this Structure==
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
[[3l45]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Paracoccus_denitrificans Paracoccus denitrificans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3L45 OCA].
+
</div>
-
 
+
== References ==
-
==Reference==
+
<references/>
-
<ref group="xtra">PMID:020351252</ref><ref group="xtra">PMID:015858277</ref><references group="xtra"/><references/>
+
__TOC__
 +
</StructureSection>
[[Category: Paracoccus denitrificans]]
[[Category: Paracoccus denitrificans]]
-
[[Category: Davidson, V L.]]
+
[[Category: Davidson, V L]]
-
[[Category: Langan, P.]]
+
[[Category: Langan, P]]
-
[[Category: Mathews, F S.]]
+
[[Category: Mathews, F S]]
-
[[Category: Sukumar, N.]]
+
[[Category: Sukumar, N]]
[[Category: Beta sandwich]]
[[Category: Beta sandwich]]
[[Category: Electron transport]]
[[Category: Electron transport]]
[[Category: Metal-binding]]
[[Category: Metal-binding]]
[[Category: Type-i blue copper protein]]
[[Category: Type-i blue copper protein]]

Revision as of 17:21, 18 December 2014

A Joint Neutron and X-ray structure of Oxidized Amicyanin

3l45, resolution 1.80Å

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/3l45"
Personal tools