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.


1sjv

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /> <applet load="1sjv" size="450" color="white" frame="true" align="right" spinBox="true" caption="1sjv, resolution 1.94&Aring;" /> '''Three-Dimensional S...)
Current revision (08:32, 1 May 2024) (edit) (undo)
 
(15 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1sjv.gif|left|200px]]<br />
 
-
<applet load="1sjv" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1sjv, resolution 1.94&Aring;" />
 
-
'''Three-Dimensional Structure of a Llama VHH Domain Swapping'''<br />
 
-
==Overview==
+
==Three-Dimensional Structure of a Llama VHH Domain Swapping==
-
Among mammals, camelids have a unique immunological system since they, produce functional antibodies devoid of light chains and CH1 domains. To, bind antigens, whether they are proteins or haptens, camelids use the, single domain VH from their heavy chain (VHH). We report here on such a, llama VHH domain (VHH-R9) which was raised against a hapten, the RR6 red, dye. This VHH possesses the shortest complementarity determining region 3, (CDR3) among all the known VHH sequences and nevertheless binds RR6, efficiently with a K(d) value of 83 nM. However, the crystal structure of, VHH-R9 exhibits a striking feature: its CDR3 and its last beta-strand, (beta9) do not follow the immunoglobulin VH domain fold, but instead, extend out of the VHH molecular boundary and associate with a, symmetry-related molecule. The two monomers thus form a domain-swapped, dimer which establishes further contacts with symmetry-related molecules, and build a crystal-wide beta-sheet structure. The driving force of the, dimer formation is probably the strain induced by the short CDR3 together, with the cleavage of the first seven residues.
+
<StructureSection load='1sjv' size='340' side='right'caption='[[1sjv]], [[Resolution|resolution]] 1.94&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1sjv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Lama_glama Lama glama]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SJV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1SJV 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]] 1.94&#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=1sjv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sjv OCA], [https://pdbe.org/1sjv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1sjv RCSB], [https://www.ebi.ac.uk/pdbsum/1sjv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1sjv ProSAT]</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/sj/1sjv_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=1sjv ConSurf].
 +
<div style="clear:both"></div>
-
==About this Structure==
+
==See Also==
-
1SJV is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Lama_glama Lama glama]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1SJV OCA].
+
*[[Antibody 3D structures|Antibody 3D structures]]
-
 
+
*[[3D structures of non-human antibody|3D structures of non-human antibody]]
-
==Reference==
+
__TOC__
-
Domain swapping of a llama VHH domain builds a crystal-wide beta-sheet structure., Spinelli S, Desmyter A, Frenken L, Verrips T, Tegoni M, Cambillau C, FEBS Lett. 2004 Apr 23;564(1-2):35-40. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15094039 15094039]
+
</StructureSection>
[[Category: Lama glama]]
[[Category: Lama glama]]
-
[[Category: Single protein]]
+
[[Category: Large Structures]]
-
[[Category: Cambillau, C.]]
+
[[Category: Cambillau C]]
-
[[Category: Desmyter, A.]]
+
[[Category: Desmyter A]]
-
[[Category: Frenken, L.]]
+
[[Category: Frenken L]]
-
[[Category: Spinelli, S.]]
+
[[Category: Spinelli S]]
-
[[Category: Verrips, T.]]
+
[[Category: Verrips T]]
-
[[Category: camelids antibody]]
+
-
[[Category: domain swapping]]
+
-
[[Category: heavy chain antibody]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 18 09:42:25 2007''
+

Current revision

Three-Dimensional Structure of a Llama VHH Domain Swapping

PDB ID 1sjv

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/1sjv"
Personal tools