1bdd: Difference between revisions

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-[[Image:1bdd.png|left|200px]]
-{{STRUCTURE_1bdd|  PDB=1bdd  |  SCENE=  }}
+==STAPHYLOCOCCUS AUREUS PROTEIN A, IMMUNOGLOBULIN-BINDING B DOMAIN, NMR, MINIMIZED AVERAGE STRUCTURE==
+<StructureSection load='1bdd' size='340' side='right'caption='[[1bdd]]' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1bdd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BDD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1BDD FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</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=1bdd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bdd OCA], [https://pdbe.org/1bdd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1bdd RCSB], [https://www.ebi.ac.uk/pdbsum/1bdd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1bdd ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/SPA_STAAU SPA_STAAU]
+== 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/bd/1bdd_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/main_output.php?pdb_ID=1bdd ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The three-dimensional solution structure of the recombinant B domain (FB) of staphylococcal protein A, which specifically binds to the Fc portion of immunoglobulin G, was determined by NMR spectroscopy and hybrid distance geometry-dynamical simulated annealing calculations. On the basis of 692 experimental constraints including 587 distance constraints obtained from the nuclear Overhauser effect (NOE), 57 torsion angle (phi, chi 1) constraints, and 48 constraints associated with 24 hydrogen bonds, a total of 10 converged structures of FB were obtained. The atomic root mean square difference among the 10 converged structures is 0.52 +/- 0.10 A for the backbone atoms and 0.98 +/- 0.08 A for all heavy atoms (excluding the N-terminal segment from Thr1 to Glu9 and the C-terminal segment from Gln56 to Ala60, which are partially disordered). FB is composed of a bundle of three alpha-helices, i.e., helix I (Gln10-His19), helix II (Glu25-Asp37), and helix III (Ser42-Ala55). Helix II and helix III are antiparallel to each other, whereas the long axis of helix I is tilted at an angle of about 30 degrees with respect to those of helix II and helix III. Most of the hydrophobic residues of FB are buried in the interior of the bundle of the three helices. It is suggested that the buried hydrophobic residues form a hydrophobic core, contributing to the stability of FB.(ABSTRACT TRUNCATED AT 250 WORDS)
-===STAPHYLOCOCCUS AUREUS PROTEIN A, IMMUNOGLOBULIN-BINDING B DOMAIN, NMR, MINIMIZED AVERAGE STRUCTURE===
+Three-dimensional solution structure of the B domain of staphylococcal protein A: comparisons of the solution and crystal structures.,Gouda H, Torigoe H, Saito A, Sato M, Arata Y, Shimada I Biochemistry. 1992 Oct 13;31(40):9665-72. PMID:1390743<ref>PMID:1390743</ref>
-{{ABSTRACT_PUBMED_1390743}}
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
-==About this Structure==
+<div class="pdbe-citations 1bdd" style="background-color:#fffaf0;"></div>
-[[1bdd]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BDD OCA].
+== References ==
+<references/>
-==Reference==
+__TOC__
-<ref group="xtra">PMID:001390743</ref><references group="xtra"/>
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Staphylococcus aureus]]
-[[Category: Arata, Y.]]
+[[Category: Arata Y]]
-[[Category: Gouda, H.]]
+[[Category: Gouda H]]
-[[Category: Saito, A.]]
+[[Category: Saito A]]
-[[Category: Sato, M.]]
+[[Category: Sato M]]
-[[Category: Shimada, I.]]
+[[Category: Shimada I]]
-[[Category: Torigoe, H.]]
+[[Category: Torigoe H]]
-[[Category: Cell wall]]
-[[Category: Immunoglobulin binding domain]]
-[[Category: Immunoglobulin-binding protein]]
-[[Category: Transmembrane]]