This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.

2zbj

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Current revision

Crystal structure of Dioclea rostrata lectin

Structural highlights

2zbj is a 1 chain structure with sequence from Macropsychanthus bicolor. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.05Å
Ligands:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

LECA_DIORO D-mannose/D-glucose-binding lectin. Induces histamine release in mast cells from hamster and rat. Induces lymphocyte proliferation and IFNG production.^[1] ^[2] ^[3] ^[4] ^[5] ^[6]

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

The legume lectins from the subtribe Diocleinae, often referred to as concanavalin A-like lectins, are a typical example of highly similar proteins that show distinct biological activities. The pH-dependent oligomerization that some of these lectins undergo and the relative position of amino acids within the carbohydrate-binding site are factors that have been reported to contribute to these differences in the activities of Diocleinae lectins. In the present work, we determined the amino acid sequence and the crystal structure of the lectin of Dioclea rostrata seeds (DRL), with the aim of investigating the structural bases of the different behavior displayed by this lectin in comparison to other Diocleinae lectins and determining the reason for the distinct pH-dependent dimer-tetramer equilibrium. In addition, we discovered a novel multimeric arrangement for this lectin.

Crystal structure of Dioclea rostrata lectin: insights into understanding the pH-dependent dimer-tetramer equilibrium and the structural basis for carbohydrate recognition in Diocleinae lectins.,de Oliveira TM, Delatorre P, da Rocha BA, de Souza EP, Nascimento KS, Bezerra GA, Moura TR, Benevides RG, Bezerra EH, Moreno FB, Freire VN, de Azevedo WF Jr, Cavada BS J Struct Biol. 2008 Nov;164(2):177-82. Epub 2008 Jul 22. PMID:18682294^[7]

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

References

↑ de Oliveira TM, Delatorre P, da Rocha BA, de Souza EP, Nascimento KS, Bezerra GA, Moura TR, Benevides RG, Bezerra EH, Moreno FB, Freire VN, de Azevedo WF Jr, Cavada BS. Crystal structure of Dioclea rostrata lectin: insights into understanding the pH-dependent dimer-tetramer equilibrium and the structural basis for carbohydrate recognition in Diocleinae lectins. J Struct Biol. 2008 Nov;164(2):177-82. Epub 2008 Jul 22. PMID:18682294 doi:10.1016/j.jsb.2008.05.012
↑ Barral-Netto M, Santos SB, Barral A, Moreira LI, Santos CF, Moreira RA, Oliveira JT, Cavada BS. Human lymphocyte stimulation by legume lectins from the Diocleae tribe. Immunol Invest. 1992 Jul;21(4):297-303. PMID:1398779
↑ Gomes JC, Ferreira RR, Cavada BS, Moreira RA, Oliveira JT. Histamine release induced by glucose (mannose)-specific lectins isolated from Brazilian beans. Comparison with concanavalin A. Agents Actions. 1994 May;41(3-4):132-5. PMID:7524287
↑ Ferreira RR, Cavada BS, Moreira RA, Oliveira JT, Gomes JC. Characteristics of the histamine release from hamster cheek pouch mast cells stimulated by lectins from Brazilian beans and concanavalin A. Inflamm Res. 1996 Sep;45(9):442-7. PMID:8891754
↑ Dam TK, Cavada BS, Grangeiro TB, Santos CF, de Sousa FA, Oscarson S, Brewer CF. Diocleinae lectins are a group of proteins with conserved binding sites for the core trimannoside of asparagine-linked oligosaccharides and differential specificities for complex carbohydrates. J Biol Chem. 1998 May 15;273(20):12082-8. PMID:9575151
↑ Dam TK, Cavada BS, Grangeiro TB, Santos CF, Ceccatto VM, de Sousa FA, Oscarson S, Brewer CF. Thermodynamic binding studies of lectins from the diocleinae subtribe to deoxy analogs of the core trimannoside of asparagine-linked oligosaccharides. J Biol Chem. 2000 May 26;275(21):16119-26. PMID:10747944 doi:http://dx.doi.org/10.1074/jbc.M000670200
↑ de Oliveira TM, Delatorre P, da Rocha BA, de Souza EP, Nascimento KS, Bezerra GA, Moura TR, Benevides RG, Bezerra EH, Moreno FB, Freire VN, de Azevedo WF Jr, Cavada BS. Crystal structure of Dioclea rostrata lectin: insights into understanding the pH-dependent dimer-tetramer equilibrium and the structural basis for carbohydrate recognition in Diocleinae lectins. J Struct Biol. 2008 Nov;164(2):177-82. Epub 2008 Jul 22. PMID:18682294 doi:10.1016/j.jsb.2008.05.012

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2zbj"

@@ Line 1: / Line 1: @@
 ==Crystal structure of Dioclea rostrata lectin==
-<StructureSection load='2zbj' size='340' side='right' caption='[[2zbj]], [[Resolution|resolution]] 2.05&Aring;' scene=''>
+<StructureSection load='2zbj' size='340' side='right'caption='[[2zbj]], [[Resolution|resolution]] 2.05&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2zbj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dioclea_rostrata Dioclea rostrata]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZBJ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ZBJ FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2zbj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Macropsychanthus_bicolor Macropsychanthus bicolor]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZBJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZBJ FirstGlance]. <br>
-</td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene><br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.05&#8491;</td></tr>
-<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=2zbj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zbj OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2zbj RCSB], [http://www.ebi.ac.uk/pdbsum/2zbj PDBsum]</span></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=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-<table>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2zbj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2zbj OCA], [https://pdbe.org/2zbj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2zbj RCSB], [https://www.ebi.ac.uk/pdbsum/2zbj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2zbj ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/LECA_DIORO LECA_DIORO] D-mannose/D-glucose-binding lectin. Induces histamine release in mast cells from hamster and rat. Induces lymphocyte proliferation and IFNG production.<ref>PMID:18682294</ref> <ref>PMID:1398779</ref> <ref>PMID:7524287</ref> <ref>PMID:8891754</ref> <ref>PMID:9575151</ref> <ref>PMID:10747944</ref>
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
 Check<jmol>
   <jmolCheckbox>
-    <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zb/2zbj_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/zb/2zbj_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
-</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
+</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2zbj ConSurf].
 <div style="clear:both"></div>
 <div style="background-color:#fffaf0;">
@@ Line 24: / Line 28: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 2zbj" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Dioclea rostrata]]
+[[Category: Large Structures]]
-[[Category: Azevedo, W F.de.]]
+[[Category: Macropsychanthus bicolor]]
-[[Category: Benevides, R G.]]
+[[Category: Benevides RG]]
-[[Category: Bezerra, E H.S.]]
+[[Category: Bezerra EHS]]
-[[Category: Bezerra, G A.]]
+[[Category: Bezerra GA]]
-[[Category: Cavada, B S.]]
+[[Category: Cavada BS]]
-[[Category: Delatorre, P.]]
+[[Category: Delatorre P]]
-[[Category: Freire, V N.]]
+[[Category: Freire VN]]
-[[Category: Moreno, F B.M B.]]
+[[Category: Moreno FBMB]]
-[[Category: Moura, T R.]]
+[[Category: Moura TR]]
-[[Category: Nascimento, K S.]]
+[[Category: Nascimento KS]]
-[[Category: Oliveira, T M.de.]]
+[[Category: Da Rocha BAM]]
-[[Category: Rocha, B A.M da.]]
+[[Category: De Azevedo Jr WF]]
-[[Category: Sousa, E P.de.]]
+[[Category: De Oliveira TM]]
-[[Category: Dioclea rostrata]]
+[[Category: De Sousa EP]]
-[[Category: Diocleinae]]
-[[Category: Lectin]]
-[[Category: Leguminosae]]
-[[Category: Manganese]]
-[[Category: Metal-binding]]
-[[Category: Sugar binding protein]]
-[[Category: Vacuole]]

2zbj

From Proteopedia

Current revision

Crystal structure of Dioclea rostrata lectin

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox