4y9t: Difference between revisions

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 ==CRYSTAL STRUCTURE OF AN ABC TRANSPORTER SOLUTE BINDING PROTEIN (IPR025997) FROM AGROBACTERIUM VITIS S4 (Avi_5305, TARGET EFI-511224) WITH BOUND ALPHA-D-GLUCOSAMINE==
-<StructureSection load='4y9t' size='340' side='right' caption='[[4y9t]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
+<StructureSection load='4y9t' size='340' side='right'caption='[[4y9t]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4y9t]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y9T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Y9T FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4y9t]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Agrobacterium_vitis_S4 Agrobacterium vitis S4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y9T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4Y9T FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PA1:2-AMINO-2-DEOXY-ALPHA-D-GLUCOPYRANOSE'>PA1</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=PA1:2-AMINO-2-DEOXY-ALPHA-D-GLUCOPYRANOSE'>PA1</scene></td></tr>
-<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</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=4y9t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y9t OCA], [https://pdbe.org/4y9t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4y9t RCSB], [https://www.ebi.ac.uk/pdbsum/4y9t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4y9t 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=4y9t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y9t OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4y9t RCSB], [http://www.ebi.ac.uk/pdbsum/4y9t PDBsum]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/B9K0Q5_AGRVS B9K0Q5_AGRVS]
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The uptake of exogenous solutes by prokaryotes is mediated by transport systems embedded in the plasma membrane. In many cases, a solute-binding protein (SBP) is utilized to bind ligands with high affinity and deliver them to the membrane-bound components responsible for translocation into the cytoplasm. In the present study, Avi_5305, an Agrobacterium vitis SBP belonging to Pfam13407, was screened by differential scanning fluorimetry (DSF) and found to be stabilized by D-glucosamine and D-galactosamine. Avi_5305 is the first protein from Pfam13407 shown to be specific for amino sugars, and co-crystallization resulted in structures of Avi_5305 bound to D-glucosamine and D-galactosamine. Typical of Pfam13407, Avi_5305 consists of two alpha/beta domains linked through a hinge region, with the ligand-binding site located in a cleft between the two domains. Comparisons with Escherichia coli ribose-binding protein suggest that a cation-pi interaction with Tyr168 provides the specificity for D-glucosamine/D-galactosamine over D-glucose/D-galactose.
+Structure of an ABC transporter solute-binding protein specific for the amino sugars glucosamine and galactosamine.,Yadava U, Vetting MW, Al Obaidi N, Carter MS, Gerlt JA, Almo SC Acta Crystallogr F Struct Biol Commun. 2016 Jun 1;72(Pt 6):467-72. doi:, 10.1107/S2053230X16007500. Epub 2016 May 23. PMID:27303900<ref>PMID:27303900</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 4y9t" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
 __TOC__
 </StructureSection>
-[[Category: Almo, S C]]
+[[Category: Agrobacterium vitis S4]]
-[[Category: Attonito, J D]]
+[[Category: Large Structures]]
-[[Category: Benach, J]]
+[[Category: Al Obaidi NF]]
-[[Category: Chamala, S]]
+[[Category: Almo SC]]
-[[Category: Chowdhury, S]]
+[[Category: Attonito JD]]
-[[Category: EFI, Enzyme Function Initiative]]
+[[Category: Benach J]]
-[[Category: Gerlt, J A]]
+[[Category: Chamala S]]
-[[Category: Glenn, A Scott]]
+[[Category: Chowdhury S]]
-[[Category: Koss, J]]
+[[Category: Gerlt JA]]
-[[Category: Lafleur, J]]
+[[Category: Koss J]]
-[[Category: Love, J]]
+[[Category: Lafleur J]]
-[[Category: Morisco, L L]]
+[[Category: Love J]]
-[[Category: Obaidi, N F.Al]]
+[[Category: Morisco LL]]
-[[Category: Seidel, R D]]
+[[Category: Scott Glenn A]]
-[[Category: Toro, R]]
+[[Category: Seidel RD]]
-[[Category: Vetting, M W]]
+[[Category: Toro R]]
-[[Category: Wasserman, S R]]
+[[Category: Vetting MW]]
-[[Category: Whalen, K L]]
+[[Category: Wasserman SR]]
-[[Category: Abc transporter solute binding protein]]
+[[Category: Whalen KL]]
-[[Category: Efi]]
-[[Category: Enzyme function initiative]]
-[[Category: Structural genomic]]