4y9t: Difference between revisions

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-'''Unreleased structure'''
-The entry 4y9t is ON HOLD
+==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=''>
+== Structural highlights ==
+<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" 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='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>
+</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.
-Authors: Vetting, M.W., Al Obaidi, N.F., Toro, R., Morisco, L.L., Benach, J., Koss, J., Wasserman, S.R., Attonito, J.D., Scott Glenn, A., Chamala, S., Chowdhury, S., Lafleur, J., Love, J., Seidel, R.D., Whalen, K.L., Gerlt, J.A., Almo, S.C., Enzyme Function Initiative (EFI)
+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>
-Description: CRYSTAL STRUCTURE OF AN ABC TRANSPORTER SOLUTE BINDING PROTEIN (IPR025997) FROM AGROBACTERIUM VITIS S4 (Avi_5305, TARGET EFI-511224) WITH BOUND ALPHA-D-GLUCOSAMINE
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Toro, R]]
+<div class="pdbe-citations 4y9t" style="background-color:#fffaf0;"></div>
-[[Category: Enzyme Function Initiative (Efi)]]
+== References ==
-[[Category: Morisco, L.L]]
+<references/>
-[[Category: Almo, S.C]]
+__TOC__
-[[Category: Attonito, J.D]]
+</StructureSection>
-[[Category: Lafleur, J]]
+[[Category: Agrobacterium vitis S4]]
-[[Category: Love, J]]
+[[Category: Large Structures]]
-[[Category: Benach, J]]
+[[Category: Al Obaidi NF]]
-[[Category: Wasserman, S.R]]
+[[Category: Almo SC]]
-[[Category: Vetting, M.W]]
+[[Category: Attonito JD]]
-[[Category: Chowdhury, S]]
+[[Category: Benach J]]
-[[Category: Al Obaidi, N.F]]
+[[Category: Chamala S]]
-[[Category: Gerlt, J.A]]
+[[Category: Chowdhury S]]
-[[Category: Seidel, R.D]]
+[[Category: Gerlt JA]]
-[[Category: Whalen, K.L]]
+[[Category: Koss J]]
-[[Category: Chamala, S]]
+[[Category: Lafleur J]]
-[[Category: Scott Glenn, A]]
+[[Category: Love J]]
-[[Category: Koss, J]]
+[[Category: Morisco LL]]
+[[Category: Scott Glenn A]]
+[[Category: Seidel RD]]
+[[Category: Toro R]]
+[[Category: Vetting MW]]
+[[Category: Wasserman SR]]
+[[Category: Whalen KL]]