1dqd: Difference between revisions

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-{{Seed}}
-[[Image:1dqd.png|left|200px]]
-<!--
+==CRYSTAL STRUCTURE OF FAB HGR-2 F6, A COMPETITIVE ANTAGONIST OF THE GLUCAGON RECEPTOR==
-The line below this paragraph, containing "STRUCTURE_1dqd", creates the "Structure Box" on the page.
+<StructureSection load='1dqd' size='340' side='right'caption='[[1dqd]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[1dqd]] is a 2 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=1DQD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DQD FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#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=1dqd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dqd OCA], [https://pdbe.org/1dqd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dqd RCSB], [https://www.ebi.ac.uk/pdbsum/1dqd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dqd ProSAT]</span></td></tr>
-{{STRUCTURE_1dqd|  PDB=1dqd  |  SCENE=  }}
+</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/dq/1dqd_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=1dqd ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The monoclonal antibody hGR-2 F6 has been raised against the human glucagon receptor and shown to act as a competitive antagonist. As a first step in the structural characterization of the receptor, the crystal structure of the Fab fragment from this antibody is reported at 2.1 A resolution. The hGR-2 F6 Fab crystallizes in the orthorhombic space group P2(1)2(1)2, with unit-cell parameters a = 76.14, b = 133.74, c = 37.46 A. A model generated by homology modelling was used as an aid in the chain-tracing and the Fab fragment structure was subsequently refined (final R factor = 21.7%). The structure obtained exhibits the typical immunoglobulin fold. Complementarity-determining regions (CDRs) L1, L2, L3, H1 and H2 could be superposed onto standard canonical CDR loops. The H3 loop could be classified according to recently published rules regarding loop length, sequence and conformation. This loop is 14 residues long, with an approximate beta-hairpin geometry, which is distorted somewhat by the presence of two trans proline residues at the beginning of the loop. It is expected that this H3 loop will facilitate the design of synthetic probes for the glucagon receptor that may be used to investigate receptor activity.
-===CRYSTAL STRUCTURE OF FAB HGR-2 F6, A COMPETITIVE ANTAGONIST OF THE GLUCAGON RECEPTOR===
+Structure of Fab hGR-2 F6, a competitive antagonist of the glucagon receptor.,Wright LM, Brzozowski AM, Hubbard RE, Pike AC, Roberts SM, Skovgaard RN, Svendsen I, Vissing H, Bywater RP Acta Crystallogr D Biol Crystallogr. 2000 May;56(Pt 5):573-80. PMID:10771426<ref>PMID:10771426</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1dqd" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_10771426}}, adds the Publication Abstract to the page
+*[[Antibody 3D structures|Antibody 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 10771426 is the PubMed ID number.
+*[[Sandbox 20009|Sandbox 20009]]
--->
+*[[3D structures of non-human antibody|3D structures of non-human antibody]]
-{{ABSTRACT_PUBMED_10771426}}
+== References ==
+<references/>
-==About this Structure==
+__TOC__
-DQD is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DQD OCA].
+</StructureSection>
+[[Category: Large Structures]]
-==Reference==
-<ref group="xtra">PMID:10771426</ref><references group="xtra"/>
 [[Category: Mus musculus]]
-[[Category: Brzozowski, A M.]]
+[[Category: Brzozowski AM]]
-[[Category: Bywater, R P.]]
+[[Category: Bywater RP]]
-[[Category: Hubbard, R E.]]
+[[Category: Hubbard RE]]
-[[Category: Pike, A C.W.]]
+[[Category: Pike ACW]]
-[[Category: Roberts, S M.]]
+[[Category: Roberts SM]]
-[[Category: Skovgaard, R N.]]
+[[Category: Skovgaard RN]]
-[[Category: Svendsen, I.]]
+[[Category: Svendsen I]]
-[[Category: Vissing, H.]]
+[[Category: Vissing H]]
-[[Category: Wright, L M.]]
+[[Category: Wright LM]]
-[[Category: Antigen binding site]]
-[[Category: Complementarity-determining region]]
-[[Category: Fab]]
-[[Category: Glucagon receptor]]
-[[Category: Heavy chain]]
-[[Category: Light chain]]
-[[Category: Monoclonal antibody]]
-[[Category: Receptor antagonist]]
-[[Category: Typical immunoglobulin fold]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 05:17:14 2009''