3fzu

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (05:49, 17 October 2024) (edit) (undo)
 
(8 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:3fzu.png|left|200px]]
 
-
<!--
+
==IgG1 Fab characterized by H/D exchange==
-
The line below this paragraph, containing "STRUCTURE_3fzu", creates the "Structure Box" on the page.
+
<StructureSection load='3fzu' size='340' side='right'caption='[[3fzu]], [[Resolution|resolution]] 2.50&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'>[[3fzu]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FZU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FZU 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]] 2.5&#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=3fzu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fzu OCA], [https://pdbe.org/3fzu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3fzu RCSB], [https://www.ebi.ac.uk/pdbsum/3fzu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3fzu ProSAT]</span></td></tr>
-
{{STRUCTURE_3fzu| PDB=3fzu | SCENE= }}
+
</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/fz/3fzu_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=3fzu ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Protein function is dictated by protein conformation. For the protein biopharmaceutical industry, therefore, it is important to have analytical tools that can detect changes in protein conformation rapidly, accurately, and with high sensitivity. In this paper we show that hydrogen/deuterium exchange mass spectrometry (H/DX-MS) can play an important role in fulfilling this need within the industry. H/DX-MS was used to assess both global and local conformational behavior of a recombinant monoclonal IgG1 antibody, a major class of biopharmaceuticals. Analysis of exchange into the intact, glycosylated IgG1 (and the Fab and Fc regions thereof) showed that the molecule was folded, highly stable, and highly amenable to analysis by this method using less than a nanomole of material. With improved chromatographic methods, peptide identification algorithms and data-processing steps, the analysis of deuterium levels in peptic peptides produced after labeling was accomplished in 1-2 days. On the basis of peptic peptide data, exchange was localized to specific regions of the antibody. Changes to IgG1 conformation as a result of deglycosylation were determined by comparing exchange into the glycosylated and deglycosylated forms of the antibody. Two regions of the IgG1 (residues 236-253 and 292-308) were found to have altered exchange properties upon deglycosylation. These results are consistent with previous findings concerning the role of glycosylation in the interaction of IgG1 with Fc receptors. Moreover, the data clearly illustrate how H/DX-MS can provide important characterization information on the higher order structure of antibodies and conformational changes that these molecules may experience upon modification.
-
===IgG1 Fab characterized by H/D exchange===
+
Characterization of IgG1 Conformation and Conformational Dynamics by Hydrogen/Deuterium Exchange Mass Spectrometry.,Houde D, Arndt J, Domeier W, Berkowitz S, Engen JR Anal Chem. 2009 Mar 5. PMID:19265386<ref>PMID:19265386</ref>
 +
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 +
</div>
 +
<div class="pdbe-citations 3fzu" style="background-color:#fffaf0;"></div>
-
<!--
+
==See Also==
-
The line below this paragraph, {{ABSTRACT_PUBMED_19265386}}, adds the Publication Abstract to the page
+
*[[Antibody 3D structures|Antibody 3D structures]]
-
(as it appears on PubMed at http://www.pubmed.gov), where 19265386 is the PubMed ID number.
+
*[[Sandbox 20009|Sandbox 20009]]
-
-->
+
*[[3D structures of human antibody|3D structures of human antibody]]
-
{{ABSTRACT_PUBMED_19265386}}
+
== References ==
-
 
+
<references/>
-
==About this Structure==
+
__TOC__
-
3FZU is a 4 chains structure with sequences from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FZU OCA].
+
</StructureSection>
-
 
+
-
==Reference==
+
-
<ref group="xtra">PMID:19265386</ref><references group="xtra"/>
+
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
-
[[Category: Arndt, J.]]
+
[[Category: Large Structures]]
-
[[Category: Berkowitz, S.]]
+
[[Category: Arndt J]]
-
[[Category: Domeier, W.]]
+
[[Category: Berkowitz S]]
-
[[Category: Engen, J R.]]
+
[[Category: Domeier W]]
-
[[Category: Houde, D.]]
+
[[Category: Engen JR]]
-
[[Category: Igg1 fab]]
+
[[Category: Houde D]]
-
[[Category: Immune system]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May 26 08:39:13 2010''
+

Current revision

IgG1 Fab characterized by H/D exchange

PDB ID 3fzu

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/3fzu"
Personal tools