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.


1g9e

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (11:20, 27 March 2024) (edit) (undo)
 
(13 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1g9e.jpg|left|200px]]
 
-
{{Structure
+
==SOLUTION STRUCTURE AND RELAXATION MEASUREMENTS OF AN ANTIGEN-FREE HEAVY CHAIN VARIABLE DOMAIN (VHH) FROM LLAMA==
-
|PDB= 1g9e |SIZE=350|CAPTION= <scene name='initialview01'>1g9e</scene>
+
<StructureSection load='1g9e' size='340' side='right'caption='[[1g9e]]' scene=''>
-
|SITE=
+
== Structural highlights ==
-
|LIGAND=
+
<table><tr><td colspan='2'>[[1g9e]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Lama_glama Lama glama]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G9E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1G9E FirstGlance]. <br>
-
|ACTIVITY=
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-
|GENE=
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1g9e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1g9e OCA], [https://pdbe.org/1g9e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1g9e RCSB], [https://www.ebi.ac.uk/pdbsum/1g9e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1g9e 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/g9/1g9e_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=1g9e ConSurf].
 +
<div style="clear:both"></div>
-
'''SOLUTION STRUCTURE AND RELAXATION MEASUREMENTS OF AN ANTIGEN-FREE HEAVY CHAIN VARIABLE DOMAIN (VHH) FROM LLAMA'''
+
==See Also==
-
 
+
*[[Antibody 3D structures|Antibody 3D structures]]
-
 
+
*[[3D structures of non-human antibody|3D structures of non-human antibody]]
-
==Overview==
+
__TOC__
-
Camelids, (dromedaries, camels, and llamas) produce heavy-chains antibodies, with their antigen recognition sites composed of a single VH-like domain, referred to as VHH. The solution structure of one of these VHHs domains (VHH-H14), raised against the alpha subunit of the human chorionic gonadotropin hormone (hCG), has been determined by (15)N heteronuclear three-dimensional NMR spectroscopy. The framework is well resolved within the set of 20 best-calculated NMR structures and is close to that of classical VH domains from vertebrate antibodies, consisting of two antiparallel beta-sheets organized in a beta-barrel. Loops display a lower precision, especially the Complementarity Determining Regions (CDRs), involved in antigen recognition. Comparison of the three-dimensional VHH-H14 solution structure with its previously solved crystal structure (Spinelli et al., Nature Struct. Biol. 1996;3:752-757) reveals a high similarity to the framework, whereas significant conformational differences occur on CDRs, leading to the assumption that the antigen recognition site is a more mobile part. In order to deepen our insights into the dynamics of VHH-H14 in solution, (15)N relaxation was measured with longitudinal R1 and transverse R2 self-relaxation rates, and (15)N steady-state heteronuclear nuclear Overhauser enhancements (NOE), making it possible to probe picosecond-to-millisecond internal motions. Determination of dynamic parameters (S(2), tau(e), and Rex) through the Lipari-Szabo Model-free approach enables the identification of several regions with enhanced dynamics. Especially, the mobility measurements from NMR confirm that the antigen recognition site is the most mobile part of the VHH-H14 domain on picosecond-to-nanosecond fast time scales. Several residues belonging to the three CDRs are submitted to chemical exchange processes occurring on slow microsecond-to-millisecond time scales, suggesting that the formation of the VHH/antigen complex should be accompanied by structural changes.
+
</StructureSection>
-
 
+
-
==About this Structure==
+
-
1G9E is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Lama_glama Lama glama]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G9E OCA].
+
-
 
+
-
==Reference==
+
-
Solution structure and backbone dynamics of an antigen-free heavy chain variable domain (VHH) from Llama., Renisio JG, Perez J, Czisch M, Guenneugues M, Bornet O, Frenken L, Cambillau C, Darbon H, Proteins. 2002 Jun 1;47(4):546-55. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12001233 12001233]
+
[[Category: Lama glama]]
[[Category: Lama glama]]
-
[[Category: Single protein]]
+
[[Category: Large Structures]]
-
[[Category: Bornet, O.]]
+
[[Category: Bornet O]]
-
[[Category: Cambillau, C.]]
+
[[Category: Cambillau C]]
-
[[Category: Czisch, M.]]
+
[[Category: Czisch M]]
-
[[Category: Darbon, H.]]
+
[[Category: Darbon H]]
-
[[Category: Frenken, L.]]
+
[[Category: Frenken L]]
-
[[Category: Guenneugues, M.]]
+
[[Category: Guenneugues M]]
-
[[Category: Perez, J.]]
+
[[Category: Perez J]]
-
[[Category: Renisio, J G.]]
+
[[Category: Renisio J-G]]
-
[[Category: beta barrel]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 11:20:04 2008''
+

Current revision

SOLUTION STRUCTURE AND RELAXATION MEASUREMENTS OF AN ANTIGEN-FREE HEAVY CHAIN VARIABLE DOMAIN (VHH) FROM LLAMA

PDB ID 1g9e

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/1g9e"
Personal tools