3lw6: Difference between revisions

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-[[Image:3lw6.png|left|200px]]
-{{STRUCTURE_3lw6|  PDB=3lw6  |  SCENE=  }}
+==Crystal Structure of Drosophila beta1,4-galactosyltransferase-7==
+<StructureSection load='3lw6' size='340' side='right'caption='[[3lw6]], [[Resolution|resolution]] 1.81&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[3lw6]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LW6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3LW6 FirstGlance]. <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]] 1.81&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=UDP:URIDINE-5-DIPHOSPHATE'>UDP</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=3lw6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lw6 OCA], [https://pdbe.org/3lw6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3lw6 RCSB], [https://www.ebi.ac.uk/pdbsum/3lw6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3lw6 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/B4GT7_DROME B4GT7_DROME] Transfers galactose from UDP-D-Galactose (UDP-Gal) to the acceptor xylose residue in the linkage tetrasaccharide region of the glycosaminoglycan side chain of proteoglycans (PubMed:12215432, PubMed:12244071, PubMed:12590131, PubMed:20236943). No activity towards beta-GlcNAc, beta-Glc, beta-Gal, and beta-GalNAc as acceptors (PubMed:12244071, PubMed:12590131).<ref>PMID:12215432</ref> <ref>PMID:12244071</ref> <ref>PMID:12590131</ref> <ref>PMID:20236943</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/lw/3lw6_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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/main_output.php?pdb_ID=3lw6 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The beta1,4-galactosyltransferase-7 (beta4Gal-T7) enzyme, one of seven members of the beta4Gal-T family, transfers in the presence of manganese Gal from UDP-Gal to an acceptor sugar (xylose) that is attached to a side chain hydroxyl group of Ser/Thr residues of proteoglycan proteins. It exhibits the least protein sequence similarity with the other family members, including the well studied family member beta4Gal-T1, which, in the presence of manganese, transfers Gal from UDP-Gal to GlcNAc. We report here the crystal structure of the catalytic domain of beta4Gal-T7 from Drosophila in the presence of manganese and UDP at 1.81 A resolution. In the crystal structure, a new manganese ion-binding motif (HXH) has been observed. Superposition of the crystal structures of beta4Gal-T7 and beta4Gal-T1 shows that the catalytic pocket and the substrate-binding sites in these proteins are similar. Compared with GlcNAc, xylose has a hydroxyl group (instead of an N-acetyl group) at C2 and lacks the CH(2)OH group at C5; thus, these protein structures show significant differences in their acceptor-binding site. Modeling of xylose in the acceptor-binding site of the beta4Gal-T7 crystal structure shows that the aromatic side chain of Tyr(177) interacts strongly with the C5 atom of xylose, causing steric hindrance to any additional group at C5. Because Drosophila Cd7 has a 73% protein sequence similarity to human Cd7, the present crystal structure offers a structure-based explanation for the mutations in human Cd7 that have been linked to Ehlers-Danlos syndrome.
-===Crystal Structure of Drosophila beta1,4-galactosyltransferase-7===
+Crystal structure of the catalytic domain of Drosophila beta1,4-Galactosyltransferase-7.,Ramakrishnan B, Qasba PK J Biol Chem. 2010 May 14;285(20):15619-26. Epub 2010 Mar 17. PMID:20236943<ref>PMID:20236943</ref>
-{{ABSTRACT_PUBMED_20236943}}
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
-==About this Structure==
+<div class="pdbe-citations 3lw6" style="background-color:#fffaf0;"></div>
-[[3lw6]] is a 1 chain structure of [[Galactosyltransferase]] with sequence from [http://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LW6 OCA].
 ==See Also==
-*[[Galactosyltransferase|Galactosyltransferase]]
+*[[Glycosyltransferase 3D structures|Glycosyltransferase 3D structures]]
+== References ==
-==Reference==
+<references/>
-<ref group="xtra">PMID:020236943</ref><references group="xtra"/>
+__TOC__
+</StructureSection>
 [[Category: Drosophila melanogaster]]
-[[Category: Qasba, P K.]]
+[[Category: Large Structures]]
-[[Category: Ramakrishnan, B.]]
+[[Category: Qasba PK]]
-[[Category: Glycosyltransferase]]
+[[Category: Ramakrishnan B]]
-[[Category: Protein-mn-udp complex]]
-[[Category: Transferase]]