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3sy0

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==S25-2- A(2-8)-A(2-4)KDO trisaccharide complex==
==S25-2- A(2-8)-A(2-4)KDO trisaccharide complex==
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<StructureSection load='3sy0' size='340' side='right' caption='[[3sy0]], [[Resolution|resolution]] 1.49&Aring;' scene=''>
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<StructureSection load='3sy0' size='340' side='right'caption='[[3sy0]], [[Resolution|resolution]] 1.49&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[3sy0]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1q9q 1q9q]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SY0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3SY0 FirstGlance]. <br>
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<table><tr><td colspan='2'>[[3sy0]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1q9q 1q9q]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SY0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3SY0 FirstGlance]. <br>
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</td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>, <scene name='pdbligand=KDA:(3-DEOXY-D-MANNO-OCT-2-ULOSONIC+ACID)-2-O-ALLYL'>KDA</scene>, <scene name='pdbligand=KDO:3-DEOXY-D-MANNO-OCT-2-ULOSONIC+ACID'>KDO</scene><br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.489&#8491;</td></tr>
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<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3sy0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sy0 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3sy0 RCSB], [http://www.ebi.ac.uk/pdbsum/3sy0 PDBsum]</span></td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=KDA:(3-DEOXY-D-MANNO-OCT-2-ULOSONIC+ACID)-2-O-ALLYL'>KDA</scene>, <scene name='pdbligand=KDO:3-DEOXY-D-MANNO-OCT-2-ULOSONIC+ACID'>KDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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<table>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3sy0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sy0 OCA], [https://pdbe.org/3sy0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3sy0 RCSB], [https://www.ebi.ac.uk/pdbsum/3sy0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3sy0 ProSAT]</span></td></tr>
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<div style="background-color:#fffaf0;">
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</table>
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== Publication Abstract from PubMed ==
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High-resolution structures reveal how a germline antibody can recognize a range of clinically relevant carbohydrate epitopes. The germline response to a carbohydrate immunogen can be critical to survivability, with selection for antibody gene segments that both confer protection against common pathogens and retain the flexibility to adapt to new disease organisms. We show here that antibody S25-2 binds several distinct inner-core epitopes of bacterial lipopolysaccharides (LPSs) by linking an inherited monosaccharide residue binding site with a subset of complementarity-determining regions (CDRs) of limited flexibility positioned to recognize the remainder of an array of different epitopes. This strategy allows germline antibodies to adapt to different epitopes while minimizing entropic penalties associated with the immobilization of labile CDRs upon binding of antigen, and provides insight into the link between the genetic origin of individual CDRs and their respective roles in antigen recognition.
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Germline antibody recognition of distinct carbohydrate epitopes.,Nguyen HP, Seto NO, MacKenzie CR, Brade L, Kosma P, Brade H, Evans SV Nat Struct Biol. 2003 Dec;10(12):1019-25. Epub 2003 Nov 16. PMID:14625588<ref>PMID:14625588</ref>
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From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
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==See Also==
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</div>
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*[[Antibody 3D structures|Antibody 3D structures]]
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== References ==
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*[[3D structures of non-human antibody|3D structures of non-human antibody]]
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Large Structures]]
[[Category: Mus musculus]]
[[Category: Mus musculus]]
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[[Category: Brade, H.]]
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[[Category: Brade H]]
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[[Category: Brade, L.]]
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[[Category: Brade L]]
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[[Category: Evans, S V.]]
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[[Category: Evans SV]]
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[[Category: Kosma, P.]]
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[[Category: Kosma P]]
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[[Category: Mackenzie, C R.]]
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[[Category: Mackenzie CR]]
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[[Category: Nguyen, H P.]]
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[[Category: Nguyen HP]]
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[[Category: Seto, N O.]]
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[[Category: Seto NO]]
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[[Category: Anti-carbohydrate]]
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[[Category: Anti-lp]]
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[[Category: Antibody]]
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[[Category: Antigen-binding fragment]]
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[[Category: Fab]]
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[[Category: Immune system]]
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[[Category: Immunoglobulin]]
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[[Category: Kdo]]
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Current revision

S25-2- A(2-8)-A(2-4)KDO trisaccharide complex

PDB ID 3sy0

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