1kfa

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:28, 23 October 2024) (edit) (undo)
 
(7 intermediate revisions not shown.)
Line 1: Line 1:
-
{{STRUCTURE_1kfa| PDB=1kfa | SCENE= }}
 
-
===Crystal structure of Fab fragment complexed with gibberellin A4===
 
-
{{ABSTRACT_PUBMED_12054627}}
 
-
==About this Structure==
+
==Crystal structure of Fab fragment complexed with gibberellin A4==
-
[[1kfa]] is a 4 chain structure with 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=1KFA OCA].
+
<StructureSection load='1kfa' size='340' side='right'caption='[[1kfa]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1kfa]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KFA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KFA 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]] 2.8&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GA4:GIBBERELLIN+A4'>GA4</scene></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=1kfa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kfa OCA], [https://pdbe.org/1kfa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1kfa RCSB], [https://www.ebi.ac.uk/pdbsum/1kfa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1kfa 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/kf/1kfa_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=1kfa ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Gibberellins, a class of plant hormones, consist of more than 120 members. Only a few of them are recognized by a receptor that remains unknown. The haptenic mouse monoclonal antibody, 4-B8(8)/E9, was generated against gibberellin A(4) (GA(4)) to recognize biologically active GA selectivity, and we attempted to confirm the binding properties between the antibody and GA(4). We carried out an X-ray crystallographic analysis of the 4-B8(8)/E9 Fab fragment complexed with GA(4) at a 2.8 A resolution by using the molecular replacement method. The crystal structure of the Fab fragment showed the typical immunoglobulin fold of the beta-barrel structure which is the common motif of all antibodies. A small hapten-combining site was made up of three heavy chain CDR loops. On the other hand, CDRs of the light chain did not interact directly with GA(4). The C/D rings of the GA(4) molecule were in van der Waals contact mainly with the aromatic side chain of Tyr100AH and Phe100BH of CDR-H3. The 3 beta-hydroxyl and 6 beta-carboxyl groups were, respectively, hydrogen-bonded to the main chain of Ala33H and to the Thr53H heavy chain.
-
==Reference==
+
Crystal structure of the liganded anti-gibberellin A(4) antibody 4-B8(8)/E9 Fab fragment.,Murata T, Fushinobu S, Nakajima M, Asami O, Sassa T, Wakagi T, Yamaguchi I Biochem Biophys Res Commun. 2002 Apr 26;293(1):489-96. PMID:12054627<ref>PMID:12054627</ref>
-
<ref group="xtra">PMID:012054627</ref><references group="xtra"/><references/>
+
 
-
[[Category: Homo sapiens]]
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
[[Category: Asami, O.]]
+
</div>
-
[[Category: Fushinobu, S.]]
+
<div class="pdbe-citations 1kfa" style="background-color:#fffaf0;"></div>
-
[[Category: Murata, T.]]
+
 
-
[[Category: Nakajima, M.]]
+
==See Also==
-
[[Category: Sassa, T.]]
+
*[[Monoclonal Antibodies 3D structures|Monoclonal Antibodies 3D structures]]
-
[[Category: Wakagi, T.]]
+
== References ==
-
[[Category: Yamaguchi, I.]]
+
<references/>
-
[[Category: Immune system]]
+
__TOC__
-
[[Category: Immunoglobuiln fold]]
+
</StructureSection>
 +
[[Category: Large Structures]]
 +
[[Category: Mus musculus]]
 +
[[Category: Asami O]]
 +
[[Category: Fushinobu S]]
 +
[[Category: Murata T]]
 +
[[Category: Nakajima M]]
 +
[[Category: Sassa T]]
 +
[[Category: Wakagi T]]
 +
[[Category: Yamaguchi I]]

Current revision

Crystal structure of Fab fragment complexed with gibberellin A4

PDB ID 1kfa

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/1kfa"
Personal tools