2jdg

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:36, 9 May 2024) (edit) (undo)
 
(15 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2jdg.jpg|left|200px]]<br /><applet load="2jdg" size="350" color="white" frame="true" align="right" spinBox="true"
 
-
caption="2jdg, resolution 2.0&Aring;" />
 
-
'''AFFILIN BASED ON HUMAN GAMMA-B CRYSTALLIN'''<br />
 
-
==Overview==
+
==Affilin based on HUMAN GAMMA-B CRYSTALLIN==
-
The concept of novel binding proteins as an alternative to antibodies has, undergone rapid development and is now ready for practical use in a wide, range of applications. Alternative binding proteins, based on suitable, scaffolds with desirable properties, are selected from combinatorial, libraries in vitro. Here, we describe an approach using a beta-sheet of, human gamma-B-crystallin to generate a universal binding site through, randomization of eight solvent-exposed amino acid residues selected, according to structural and sequence analyses. Specific variants, so-called Affilin, have been isolated from a phage display library against, a variety of targets that differ considerably in size and structure. The, isolated Affilin variants can be produced in Escherichia coli as soluble, proteins and have a high level of thermodynamic stability. The crystal, structures of the human wild-type gamma-B-crystallin and a selected, Affilin variant have been determined to 1.7 A and 2.0 A resolution, respectively. Comparison of the two molecules indicates that the human, gamma-B-crystallin tolerates amino acid exchanges with no major structural, change. We conclude that the intrinsically stable and easily expressed, gamma-B-crystallin provides a suitable framework for the generation of, novel binding molecules.
+
<StructureSection load='2jdg' size='340' side='right'caption='[[2jdg]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[2jdg]] is a 1 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=2JDG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JDG 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&#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=2jdg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jdg OCA], [https://pdbe.org/2jdg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2jdg RCSB], [https://www.ebi.ac.uk/pdbsum/2jdg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2jdg ProSAT]</span></td></tr>
 +
</table>
 +
== Disease ==
 +
[https://www.uniprot.org/uniprot/CRGB_HUMAN CRGB_HUMAN] Zonular cataract;Anterior polar cataract;Total congenital cataract. The disease is caused by mutations affecting the gene represented in this entry.<ref>PMID:23288985</ref>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/CRGB_HUMAN CRGB_HUMAN] Crystallins are the dominant structural components of the vertebrate eye lens.
 +
== 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/jd/2jdg_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=2jdg ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
The concept of novel binding proteins as an alternative to antibodies has undergone rapid development and is now ready for practical use in a wide range of applications. Alternative binding proteins, based on suitable scaffolds with desirable properties, are selected from combinatorial libraries in vitro. Here, we describe an approach using a beta-sheet of human gamma-B-crystallin to generate a universal binding site through randomization of eight solvent-exposed amino acid residues selected according to structural and sequence analyses. Specific variants, so-called Affilin, have been isolated from a phage display library against a variety of targets that differ considerably in size and structure. The isolated Affilin variants can be produced in Escherichia coli as soluble proteins and have a high level of thermodynamic stability. The crystal structures of the human wild-type gamma-B-crystallin and a selected Affilin variant have been determined to 1.7 A and 2.0 A resolution, respectively. Comparison of the two molecules indicates that the human gamma-B-crystallin tolerates amino acid exchanges with no major structural change. We conclude that the intrinsically stable and easily expressed gamma-B-crystallin provides a suitable framework for the generation of novel binding molecules.
-
==About this Structure==
+
Affilin-novel binding molecules based on human gamma-B-crystallin, an all beta-sheet protein.,Ebersbach H, Fiedler E, Scheuermann T, Fiedler M, Stubbs MT, Reimann C, Proetzel G, Rudolph R, Fiedler U J Mol Biol. 2007 Sep 7;372(1):172-85. Epub 2007 Jun 22. PMID:17628592<ref>PMID:17628592</ref>
-
2JDG is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence 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=2JDG OCA].
+
-
==Reference==
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
Affilin-Novel Binding Molecules Based on Human gamma-B-Crystallin, an All beta-Sheet Protein., Ebersbach H, Fiedler E, Scheuermann T, Fiedler M, Stubbs MT, Reimann C, Proetzel G, Rudolph R, Fiedler U, J Mol Biol. 2007 Jun 22;. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17628592 17628592]
+
</div>
-
[[Category: Homo sapiens]]
+
<div class="pdbe-citations 2jdg" style="background-color:#fffaf0;"></div>
-
[[Category: Single protein]]
+
-
[[Category: Ebersbach, H.]]
+
-
[[Category: Fiedler, E.]]
+
-
[[Category: Fiedler, M.]]
+
-
[[Category: Fiedler, U.]]
+
-
[[Category: Proetzel, G.]]
+
-
[[Category: Reimann, C.]]
+
-
[[Category: Rudolph, R.]]
+
-
[[Category: Scheuermann, T.]]
+
-
[[Category: Stubbs, M.T.]]
+
-
[[Category: affilin]]
+
-
[[Category: artificial binding protein]]
+
-
[[Category: eye lens protein]]
+
-
[[Category: gamma crystallin]]
+
-
[[Category: oxidation]]
+
-
[[Category: phosphorylation]]
+
-
[[Category: polymorphism]]
+
-
[[Category: structural protein]]
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 23 13:49:27 2008''
+
==See Also==
 +
*[[Crystallin 3D structures|Crystallin 3D structures]]
 +
== References ==
 +
<references/>
 +
__TOC__
 +
</StructureSection>
 +
[[Category: Homo sapiens]]
 +
[[Category: Large Structures]]
 +
[[Category: Ebersbach H]]
 +
[[Category: Fiedler E]]
 +
[[Category: Fiedler M]]
 +
[[Category: Fiedler U]]
 +
[[Category: Proetzel G]]
 +
[[Category: Reimann C]]
 +
[[Category: Rudolph R]]
 +
[[Category: Scheuermann T]]
 +
[[Category: Stubbs MT]]

Current revision

Affilin based on HUMAN GAMMA-B CRYSTALLIN

PDB ID 2jdg

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/2jdg"
Personal tools