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.


1qd0

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (06:03, 17 April 2024) (edit) (undo)
 
(14 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1qd0.gif|left|200px]]<br /><applet load="1qd0" size="350" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1qd0, resolution 2.50&Aring;" />
 
-
'''CAMELID HEAVY CHAIN VARIABLE DOMAINS PROVIDE EFFICIENT COMBINING SITES TO HAPTENS'''<br />
 
-
==Overview==
+
==CAMELID HEAVY CHAIN VARIABLE DOMAINS PROVIDE EFFICIENT COMBINING SITES TO HAPTENS==
-
Camelids can produce antibodies devoid of light chains and CH1 domains (Hamers-Casterman, C. et al. (1993) Nature 363, 446-448). Camelid heavy-chain variable domains (VHH) have high affinities for protein antigens and the structures of two of these complexes have been determined (Desmyter, A. et al. (1996) Nature Struc. Biol. 3, 803-811; Decanniere, K. et al. (1999) Structure 7, 361-370). However, the small size of these VHHs and their monomeric nature bring into question their capacity to bind haptens. Here, we have successfully raised llama antibodies against the hapten azo-dye Reactive Red (RR6) and determined the crystal structure of the complex between a dimer of this hapten and a VHH fragment. The surface of interaction between the VHH and the dimeric hapten is large, with an area of ca. 300 A(2); this correlates well with the low-dissociation constant of 22 nM measured for the monomer. The VHH fragment provides an efficient combining site to the RR6, using its three CDR loops. In particular, CDR1 provides a strong interaction to the hapten through two histidine residues bound to its copper atoms. VHH fragments might, therefore, prove to be valuable tools for selecting, removing, or capturing haptens. They are likely to play a role in biotechnology extending beyond protein recognition alone.
+
<StructureSection load='1qd0' size='340' side='right'caption='[[1qd0]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
-
 
+
== Structural highlights ==
-
==About this Structure==
+
<table><tr><td colspan='2'>[[1qd0]] 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=1QD0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1QD0 FirstGlance]. <br>
-
1QD0 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Lama_glama Lama glama] with <scene name='pdbligand=CU:'>CU</scene> and <scene name='pdbligand=RR6:'>RR6</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QD0 OCA].
+
</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='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=RR6:3-HYDROXY-7-(4-{1-[2-HYDROXY-3-(2-HYDROXY-5-SULFO-PHENYLAZO)-BENZYL]-2-SULFO-ETHYLAMINO}-[1,2,5]TRIAZIN-2-YLAMINO)-2-(2-HYDROXY-5-SULFO-PHENYLAZO)-NAPTHALENE-1,8-DISULFONIC+ACID'>RR6</scene></td></tr>
-
==Reference==
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1qd0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qd0 OCA], [https://pdbe.org/1qd0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1qd0 RCSB], [https://www.ebi.ac.uk/pdbsum/1qd0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1qd0 ProSAT]</span></td></tr>
-
Camelid heavy-chain variable domains provide efficient combining sites to haptens., Spinelli S, Frenken LG, Hermans P, Verrips T, Brown K, Tegoni M, Cambillau C, Biochemistry. 2000 Feb 15;39(6):1217-22. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10684599 10684599]
+
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/A2KD59_LAMGL A2KD59_LAMGL]
 +
== 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/qd/1qd0_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=1qd0 ConSurf].
 +
<div style="clear:both"></div>
 +
__TOC__
 +
</StructureSection>
[[Category: Lama glama]]
[[Category: Lama glama]]
-
[[Category: Single protein]]
+
[[Category: Large Structures]]
-
[[Category: Brown, K.]]
+
[[Category: Brown K]]
-
[[Category: Cambillau, C.]]
+
[[Category: Cambillau C]]
-
[[Category: Frenken, L G.J.]]
+
[[Category: Frenken LGJ]]
-
[[Category: Hermans, P.]]
+
[[Category: Hermans P]]
-
[[Category: Spinelli, S.]]
+
[[Category: Spinelli S]]
-
[[Category: Tegoni, M.]]
+
[[Category: Tegoni M]]
-
[[Category: Verrips, T.]]
+
[[Category: Verrips T]]
-
[[Category: CU]]
+
-
[[Category: RR6]]
+
-
[[Category: azo-dye]]
+
-
[[Category: camelid vh]]
+
-
[[Category: immune system]]
+
-
[[Category: immunoglobulin fragment]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:38:19 2008''
+

Current revision

CAMELID HEAVY CHAIN VARIABLE DOMAINS PROVIDE EFFICIENT COMBINING SITES TO HAPTENS

PDB ID 1qd0

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/1qd0"
Personal tools