3ijh

From Proteopedia

(Difference between revisions)

Current revision

Structure of S67-27 in Complex with Ko

Structural highlights

3ijh is a 4 chain structure with sequence from Mus musculus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.1Å
Ligands:	,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

In order to explore the structural basis for adaptability in near germline monoclonal antibodies (mAb), we have examined the specificity of the promiscuous mAb S67-27 to both naturally derived carbohydrate antigens and a variety of synthetic nonnatural antigens based on the bacterial lipopolysaccharide component 3-deoxy-alpha-D-manno-oct-2-ulosonic acid (Kdo). One such analog, a 7-O-methyl (7-O-Me) Kdo disaccharide, was found to bind to the antibody with at least 30-fold higher affinity than any other antigen tested. The structure of S67-27 in complex with this analog and three other naturally occurring Kdo antigens revealed that the enhanced affinity of the mAb for the synthetic analog was accomplished by the strategic positioning of CDR H3 away from a conserved Kdo binding pocket that allowed the formation of new antibody-antigen contacts. Furthermore, the comparison of this structure with the structures of related mAbs revealed how the position and structure of CDR H3 influence the specificity or promiscuity of near-germline carbohydrate-recognizing antibodies by altering the architecture of the combining site.

The role of CDR H3 in antibody recognition of a synthetic analog of a lipopolysaccharide antigen.,Brooks CL, Blackler RJ, Sixta G, Kosma P, Muller-Loennies S, Brade L, Hirama T, MacKenzie CR, Brade H, Evans SV Glycobiology. 2010 Feb;20(2):138-47. Epub 2009 Sep 18. PMID:19767317^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Brooks CL, Blackler RJ, Sixta G, Kosma P, Muller-Loennies S, Brade L, Hirama T, MacKenzie CR, Brade H, Evans SV. The role of CDR H3 in antibody recognition of a synthetic analog of a lipopolysaccharide antigen. Glycobiology. 2010 Feb;20(2):138-47. Epub 2009 Sep 18. PMID:19767317 doi:10.1093/glycob/cwp150

1 Structural highlights
2 Evolutionary Conservation
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3ijh"

Categories: Large Structures | Mus musculus | Blackler RJ | Brooks CL | Evans SV

@@ Line 1: / Line 1: @@
 ==Structure of S67-27 in Complex with Ko==
-<StructureSection load='3ijh' size='340' side='right' caption='[[3ijh]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
+<StructureSection load='3ijh' size='340' side='right'caption='[[3ijh]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3ijh]] is a 4 chain structure with sequence 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=3IJH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3IJH FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3ijh]] 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=3IJH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3IJH FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=KO2:PROP-2-EN-1-YL+D-GLYCERO-ALPHA-D-TALO-OCT-2-ULOPYRANOSIDONIC+ACID'>KO2</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
+</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='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3ijs|3ijs]], [[3ijy|3ijy]], [[3ikc|3ikc]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=KO2:PROP-2-EN-1-YL+D-GLYCERO-ALPHA-D-TALO-OCT-2-ULOPYRANOSIDONIC+ACID'>KO2</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ijh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ijh OCA], [http://pdbe.org/3ijh PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ijh RCSB], [http://www.ebi.ac.uk/pdbsum/3ijh PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ijh ProSAT]</span></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=3ijh FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ijh OCA], [https://pdbe.org/3ijh PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ijh RCSB], [https://www.ebi.ac.uk/pdbsum/3ijh PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ijh ProSAT]</span></td></tr>
 </table>
 == Evolutionary Conservation ==
@@ Line 13: / Line 13: @@
   <jmolCheckbox>
     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ij/3ijh_consurf.spt"</scriptWhenChecked>
-    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
@@ Line 31: / Line 31: @@
 __TOC__
 </StructureSection>
+[[Category: Large Structures]]
 [[Category: Mus musculus]]
-[[Category: Blackler, R J]]
+[[Category: Blackler RJ]]
-[[Category: Brooks, C L]]
+[[Category: Brooks CL]]
-[[Category: Evans, S V]]
+[[Category: Evans SV]]
-[[Category: Antibody]]
-[[Category: Carbohydrate]]
-[[Category: Chlamydia]]
-[[Category: Fab]]
-[[Category: Immune system]]
-[[Category: Kdo]]
-[[Category: Lp]]

3ijh

From Proteopedia

Current revision

Structure of S67-27 in Complex with Ko

Structural highlights

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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