1q8s: Difference between revisions

← Older edit

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
 ==Pterocarpus angolensis lectin (PAL) in complex with the dimannoside Man(alpha1-6)Man==
-<StructureSection load='1q8s' size='340' side='right' caption='[[1q8s]], [[Resolution|resolution]] 2.05&Aring;' scene=''>
+<StructureSection load='1q8s' size='340' side='right'caption='[[1q8s]], [[Resolution|resolution]] 2.05&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1q8s]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Pterocarpus_angolensis Pterocarpus angolensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q8S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Q8S FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1q8s]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pterocarpus_angolensis Pterocarpus angolensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q8S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Q8S 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=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=MMA:O1-METHYL-MANNOSE'>MMA</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
+</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 id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=PCA:PYROGLUTAMIC+ACID'>PCA</scene></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=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=MMA:O1-METHYL-MANNOSE'>MMA</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=PCA:PYROGLUTAMIC+ACID'>PCA</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1n3o|1n3o]], [[1n3p|1n3p]], [[1n3q|1n3q]], [[1ukg|1ukg]], [[1q8o|1q8o]], [[1q8p|1q8p]], [[1q8q|1q8q]], [[1q8v|1q8v]]</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=1q8s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q8s OCA], [https://pdbe.org/1q8s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1q8s RCSB], [https://www.ebi.ac.uk/pdbsum/1q8s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1q8s ProSAT]</span></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=1q8s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q8s OCA], [http://pdbe.org/1q8s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1q8s RCSB], [http://www.ebi.ac.uk/pdbsum/1q8s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1q8s ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q8GSD2_PTEAG Q8GSD2_PTEAG]
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 19: / Line 20: @@
 </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=1q8s ConSurf].
 <div style="clear:both"></div>
-<div style="background-color:#fffaf0;">
-== Publication Abstract from PubMed ==
-The crystal structure of a Man/Glc-specific lectin from the seeds of the bloodwood tree (Pterocarpus angolensis), a leguminous plant from central Africa, has been determined in complex with mannose and five manno-oligosaccharides. The lectin contains a classical mannose-specificity loop, but its metal-binding loop resembles that of lectins of unrelated specificity from Ulex europaeus and Maackia amurensis. As a consequence, the interactions with mannose in the primary binding site are conserved, but details of carbohydrate-binding outside the primary binding site differ from those seen in the equivalent carbohydrate complexes of concanavalin A. These observations explain the differences in their respective fine specificity profiles for oligomannoses. While Man(alpha1-3)Man and Man(alpha1-3)[Man(alpha1-6)]Man bind to PAL in low-energy conformations identical with that of ConA, Man(alpha1-6)Man is required to adopt a different conformation. Man(alpha1-2)Man can bind only in a single binding mode, in sharp contrast to ConA, which creates a higher affinity for this disaccharide by allowing two binding modes.
-Structural basis of oligomannose recognition by the Pterocarpus angolensis seed lectin.,Loris R, Van Walle I, De Greve H, Beeckmans S, Deboeck F, Wyns L, Bouckaert J J Mol Biol. 2004 Jan 30;335(5):1227-40. PMID:14729339<ref>PMID:14729339</ref>
+==See Also==
+*[[Pal|Pal]]
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 1q8s" style="background-color:#fffaf0;"></div>
-== References ==
-<references/>
 __TOC__
 </StructureSection>
+[[Category: Large Structures]]
 [[Category: Pterocarpus angolensis]]
-[[Category: Beeckmans, S]]
+[[Category: Beeckmans S]]
-[[Category: Bouckaert, J]]
+[[Category: Bouckaert J]]
-[[Category: DeBoeck, F]]
+[[Category: De Greve H]]
-[[Category: Greve, H De]]
+[[Category: DeBoeck F]]
-[[Category: Loris, R]]
+[[Category: Loris R]]
-[[Category: Walle, I Van]]
+[[Category: Van Walle I]]
-[[Category: Wyns, L]]
+[[Category: Wyns L]]
-[[Category: Carbohydrate]]
-[[Category: Lectin]]
-[[Category: Mannose]]
-[[Category: Sugar binding protein]]