5y97

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Revision as of 09:13, 21 October 2020

Crystal structure of snake gourd seed lectin in complex with lactose

Structural highlights

5y97 is a 3 chain structure with sequence from Trichosanthes anguina. 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

[SGSL_TRIAN] Seed lectin similar to type 2 ribosome-inactivating proteins (PubMed:23897472, PubMed:11375527). The Aalpha and Abeta chains constitute the rRNA glycosidase domain and the B chain the carbohydrate-binding lectin domain (PubMed:23897472). Is predicted to have no glycosidase activity and, hence, to be non-toxic, due to small changes in both the nucleotide binding and carbohydrate binding capabilities (PubMed:23897472, PubMed:11375527). Binds galactose and derivatives with a preference for the beta-anomeric forms (PubMed:8799450, PubMed:10877067). Binds prophyrins (PubMed:10877067). Has hemagglutinating activity towards rabbit and human erythrocytes (PubMed:8799450, PubMed:10877067).^[1] ^[2] ^[3] ^[4]

Publication Abstract from PubMed

Snake gourd seed lectin (SGSL) is a non-toxic homologue of type II ribosome inactivating proteins (RIPs) which contain a catalytic domain and a lectin domain. Isothermal titration calorimetry (ITC) measurements of the interactions of the protein with LacNAc, Lac, Gal, Me-alpha-Gal were carried out and the crystal structures of the native protein and its complex with Lac were determined. The crystal structure of the Me-alpha-Gal complex has already been determined. While the crystal structure showed the presence of two-sugar binding sites, one on each of the two domains of the lectin chain, ITC measurements indicated the presence of only one binding site. In order to resolve this anomaly, Molecular Dynamics (MD) simulations were carried out on the native protein and on its complexes with Me-alpha-Gal and Lac. Simulations were also performed on the protein after reducing the inter-chain disulphide bridge between the two chains. The crystal structures and the simulations confirmed the robustness of the protein structure, irrespective of the presence or absence of the disulphide bridge. The simulations indicated that although two sites can bind sugar, only the ligand at one site is retained in a dynamic situation. The studies thus bring out the subtle relationship between binding and retention of the ligand.

Ligand binding and retention in snake gourd seed lectin (SGSL). A crystallographic, thermodynamic and molecular dynamics study.,Chandran T, Sivaji N, Surolia A, Vijayan M Glycobiology. 2018 Aug 6. pii: 5067403. doi: 10.1093/glycob/cwy072. PMID:30099481^[5]

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

References

↑ Komath SS, Kenoth R, Giribabu L, Maiya BG, Swamy MJ. Fluorescence and absorption spectroscopic studies on the interaction of porphyrins with snake gourd (Trichosanthes anguina) seed lectin. J Photochem Photobiol B. 2000 Mar;55(1):49-55. PMID:10877067
↑ Manoj N, Jeyaprakash AA, Pratap JV, Komath SS, Kenoth R, Swamy MJ, Vijayan M. Crystallization and preliminary X-ray studies of snake gourd lectin: homology with type II ribosome-inactivating proteins. Acta Crystallogr D Biol Crystallogr. 2001 Jun;57(Pt 6):912-4. Epub 2001 May 25. PMID:11375527
↑ Sharma A, Pohlentz G, Bobbili KB, Jeyaprakash AA, Chandran T, Mormann M, Swamy MJ, Vijayan M. The sequence and structure of snake gourd (Trichosanthes anguina) seed lectin, a three-chain nontoxic homologue of type II RIPs. Acta Crystallogr D Biol Crystallogr. 2013 Aug;69(Pt 8):1493-503. doi:, 10.1107/S0907444913010020. Epub 2013 Jul 18. PMID:23897472 doi:http://dx.doi.org/10.1107/S0907444913010020
↑ Komath SS, Nadimpalli SK, Swamy MJ. Purification in high yield and characterisation of the galactose-specific lectin from the seeds of snake gourd (Trichosanthes anguina). Biochem Mol Biol Int. 1996 May;39(2):243-52. PMID:8799450
↑ Chandran T, Sivaji N, Surolia A, Vijayan M. Ligand binding and retention in snake gourd seed lectin (SGSL). A crystallographic, thermodynamic and molecular dynamics study. Glycobiology. 2018 Aug 6. pii: 5067403. doi: 10.1093/glycob/cwy072. PMID:30099481 doi:http://dx.doi.org/10.1093/glycob/cwy072

1 Structural highlights
2 Function
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/5y97"

@@ Line 1: / Line 1: @@
 ==Crystal structure of snake gourd seed lectin in complex with lactose==
-<StructureSection load='5y97' size='340' side='right' caption='[[5y97]], [[Resolution|resolution]] 3.05&Aring;' scene=''>
+<StructureSection load='5y97' size='340' side='right'caption='[[5y97]], [[Resolution|resolution]] 3.05&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5y97]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Trichosanthes_anguina Trichosanthes anguina]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y97 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5Y97 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5y97]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Trichosanthes_anguina Trichosanthes anguina]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Y97 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5Y97 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LAT:BETA-LACTOSE'>LAT</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</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=5y97 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y97 OCA], [http://pdbe.org/5y97 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5y97 RCSB], [http://www.ebi.ac.uk/pdbsum/5y97 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5y97 ProSAT]</span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5y97 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5y97 OCA], [http://pdbe.org/5y97 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5y97 RCSB], [http://www.ebi.ac.uk/pdbsum/5y97 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5y97 ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 22: / Line 22: @@
 __TOC__
 </StructureSection>
+[[Category: Large Structures]]
 [[Category: Trichosanthes anguina]]
 [[Category: Chandran, T]]

5y97

From Proteopedia

Revision as of 09:13, 21 October 2020

Crystal structure of snake gourd seed lectin in complex with lactose

Structural highlights

Function

Publication Abstract from PubMed

References

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