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| | ==Structure of Human Polyomavirus 9 VP1 pentamer in complex with N-glycolylneuraminic acid containing 3'-sialyllactosamine== | | ==Structure of Human Polyomavirus 9 VP1 pentamer in complex with N-glycolylneuraminic acid containing 3'-sialyllactosamine== |
| - | <StructureSection load='4pot' size='340' side='right' caption='[[4pot]], [[Resolution|resolution]] 2.10Å' scene=''> | + | <StructureSection load='4pot' size='340' side='right'caption='[[4pot]], [[Resolution|resolution]] 2.10Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[4pot]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/Human_polyomavirus_9 Human polyomavirus 9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4POT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4POT FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[4pot]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_polyomavirus_9 Human polyomavirus 9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4POT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4POT FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=NGC:3,5-DIDEOXY-5-[(HYDROXYACETYL)AMINO]-D-GLYCERO-ALPHA-D-GALACTO-NON-2-ULOPYRANOSONIC+ACID'>NGC</scene></td></tr> | + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=IPA:ISOPROPYL+ALCOHOL'>IPA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=NGC:3,5-DIDEOXY-5-[(HYDROXYACETYL)AMINO]-D-GLYCERO-ALPHA-D-GALACTO-NON-2-ULOPYRANOSONIC+ACID'>NGC</scene></td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4mbz|4mbz]], [[4fmi|4fmi]], [[4poq|4poq]], [[4por|4por]], [[4pos|4pos]]</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=4pot FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pot OCA], [https://pdbe.org/4pot PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4pot RCSB], [https://www.ebi.ac.uk/pdbsum/4pot PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4pot ProSAT]</span></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">gp3, vp1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=943908 Human polyomavirus 9])</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=4pot FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pot OCA], [http://pdbe.org/4pot PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4pot RCSB], [http://www.ebi.ac.uk/pdbsum/4pot PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4pot ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/E9NQ90_9POLY E9NQ90_9POLY] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | </div> | | </div> |
| | <div class="pdbe-citations 4pot" style="background-color:#fffaf0;"></div> | | <div class="pdbe-citations 4pot" style="background-color:#fffaf0;"></div> |
| | + | |
| | + | ==See Also== |
| | + | *[[Virus coat proteins 3D structures|Virus coat proteins 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
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| | </StructureSection> | | </StructureSection> |
| | [[Category: Human polyomavirus 9]] | | [[Category: Human polyomavirus 9]] |
| - | [[Category: Khan, Z M]] | + | [[Category: Large Structures]] |
| - | [[Category: Stehle, T]] | + | [[Category: Khan ZM]] |
| - | [[Category: Capsid formation]] | + | [[Category: Stehle T]] |
| - | [[Category: Carbohydrate]]
| + | |
| - | [[Category: Jelly roll fold]]
| + | |
| - | [[Category: Receptor interaction]]
| + | |
| - | [[Category: Sialyloligosaccharide]]
| + | |
| - | [[Category: Viral coat protein]]
| + | |
| - | [[Category: Viral protein]]
| + | |
| Structural highlights
4pot is a 10 chain structure with sequence from Human polyomavirus 9. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
| | Ligands: | , , , , , |
| Resources: | FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT |
Function
E9NQ90_9POLY
Publication Abstract from PubMed
Human polyomavirus 9 (HPyV9) is a closely related homologue of simian B-lymphotropic polyomavirus (LPyV). In order to define the architecture and receptor binding properties of HPyV9, we solved high-resolution crystal structures of its major capsid protein, VP1, in complex with three putative oligosaccharide receptors identified by glycan microarray screening. Comparison of the properties of HPyV9 VP1 with the known structure and glycan-binding properties of LPyV VP1 revealed that both viruses engage short sialylated oligosaccharides, but small yet important differences in specificity were detected. Surprisingly, HPyV9 VP1 preferentially binds sialyllactosamine compounds terminating in 5-N-glycolyl neuraminic acid (Neu5Gc) over those terminating in 5-N-acetyl neuraminic acid (Neu5Ac), whereas LPyV does not exhibit such a preference. The structural analysis demonstrated that HPyV9 makes specific contacts, via hydrogen bonds, with the extra hydroxyl group present in Neu5Gc. An equivalent hydrogen bond cannot be formed by LPyV VP1. IMPORTANCE: The most common sialic acid in humans is 5-N-acetyl neuraminic acid (Neu5Ac), but various modifications give rise to more than 50 different sialic acid variants that decorate the cell surface. Unlike most mammals, humans cannot synthesize the sialic acid variant 5-N-glycolyl neuraminic acid (Neu5Gc) due to a gene defect. Humans can, however, still acquire this compound from dietary sources. The role of Neu5Gc in receptor engagement and in defining viral tropism is only beginning to emerge, and structural analyses defining the differences in specificity for Neu5Ac and Neu5Gc are still rare. Using glycan microarray screening and high-resolution protein crystallography, we have examined the receptor specificity of a recently discovered human polyomavirus, HPyV9, and compared it to that of the closely related simian polyomavirus LPyV. Our study highlights critical differences in the specificities of both viruses, contributing to an enhanced understanding of the principles that underlie pathogen selectivity for modified sialic acids.
Crystallographic and glycan microarray analysis of human polyomavirus 9 VP1 identifies N-glycolyl neuraminic acid as a receptor candidate.,Khan ZM, Liu Y, Neu U, Gilbert M, Ehlers B, Feizi T, Stehle T J Virol. 2014 Jun;88(11):6100-11. doi: 10.1128/JVI.03455-13. Epub 2014 Mar 19. PMID:24648448[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Khan ZM, Liu Y, Neu U, Gilbert M, Ehlers B, Feizi T, Stehle T. Crystallographic and glycan microarray analysis of human polyomavirus 9 VP1 identifies N-glycolyl neuraminic acid as a receptor candidate. J Virol. 2014 Jun;88(11):6100-11. doi: 10.1128/JVI.03455-13. Epub 2014 Mar 19. PMID:24648448 doi:http://dx.doi.org/10.1128/JVI.03455-13
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