3zyr

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== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3zyr]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Platypodium_elegans Platypodium elegans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZYR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ZYR FirstGlance]. <br>
<table><tr><td colspan='2'>[[3zyr]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Platypodium_elegans Platypodium elegans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZYR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ZYR FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ASN:ASPARAGINE'>ASN</scene>, <scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=URE:UREA'>URE</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
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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]] 1.65&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3zvx|3zvx]]</div></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=ASN:ASPARAGINE'>ASN</scene>, <scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=URE:UREA'>URE</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=3zyr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zyr OCA], [https://pdbe.org/3zyr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3zyr RCSB], [https://www.ebi.ac.uk/pdbsum/3zyr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3zyr 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=3zyr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zyr OCA], [https://pdbe.org/3zyr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3zyr RCSB], [https://www.ebi.ac.uk/pdbsum/3zyr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3zyr ProSAT]</span></td></tr>
</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/G1EUI6_9FABA G1EUI6_9FABA]
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Lectin activity with specificity for mannose and glucose has been detected in the seed of Platypodium elegans, a legume plant from the Dalbergiae tribe. The gene of the lectin PELa has been cloned and the resulting 261 amino acid protein belongs to the legume lectin family with similarity with Pterocarpus angolensis agglutinin (PAL) from the same tribe. The recombinant lectin has been expressed in Escherichia coli and refolded from inclusion bodies. Analysis of specificity by glycan grray evidenced a very unusual preference for complex type N-glycans with asymmetrical branches. A short branch consisting of one mannose residue is preferred on the 6-arm of the N-glycan, while extension by GlcNAc, Gal and NeuAc are favorable on the 3-arm. Affinities have been obtained by microcalorimetry using symmetrical and asymmetrical Asn-linked heptasaccharides prepared by semi-enzymatic method. Strong affinity with Kd of 4.5 muM was obtained for both ligands. Crystal structures of PELa complexed with branched trimannose and symmetrical complex type Asn-linked heptasaccharide have been solved at 2.1 and 1.65 A resolution respectively. The lectin adopts the canonical dimeric organization of legume lectins. The trimannose bridges the binding sites of two neighbouring dimers, resulting in the formation of infinite chains in the crystal. The Asn-linked heptasaccharide binds with the 6-arm in the primary binding site and extensive additional contacts on both arms. The GlcNAc on the 6-arm is bound in a constrained conformation that may rationalize the higher affinity observed on the glycan array for N-glycans with only a mannose on the 6-arm.
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A lectin from Platypodium elegans with unusual specificity and affinity for asymmetric complex N-glycans.,Benevides RG, Ganne G, Simoes RD, Schubert V, Niemietz M, Unverzagt C, Chazalet V, Breton C, Varrot A, Cavada BS, Imberty A J Biol Chem. 2012 Jun 12. PMID:22692206<ref>PMID:22692206</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 3zyr" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Platypodium elegans]]
[[Category: Platypodium elegans]]
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[[Category: Benevides, R G]]
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[[Category: Benevides RG]]
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[[Category: Cavazza, B S]]
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[[Category: Cavazza BS]]
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[[Category: Ganne, G]]
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[[Category: Ganne G]]
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[[Category: Imberty, A]]
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[[Category: Imberty A]]
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[[Category: Varrot, A]]
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[[Category: Varrot A]]
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[[Category: N-glycan]]
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[[Category: Plant lectin]]
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[[Category: Sugar binding protein]]
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Current revision

Structure of the lectin from Platypodium elegans in complex with heptasaccharide

PDB ID 3zyr

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Proteopedia Page Contributors and Editors (what is this?)

OCA

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