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| | <StructureSection load='5drk' size='340' side='right'caption='[[5drk]], [[Resolution|resolution]] 2.38Å' scene=''> | | <StructureSection load='5drk' size='340' side='right'caption='[[5drk]], [[Resolution|resolution]] 2.38Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5drk]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Thik1 Thik1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DRK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5DRK FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5drk]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Thiomonas_intermedia_K12 Thiomonas intermedia K12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5DRK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5DRK FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</scene>, <scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</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]] 2.38Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5ds7|5ds7]]</td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</scene>, <scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Tint_0114 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=75379 THIK1])</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=5drk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5drk OCA], [https://pdbe.org/5drk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5drk RCSB], [https://www.ebi.ac.uk/pdbsum/5drk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5drk 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=5drk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5drk OCA], [http://pdbe.org/5drk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5drk RCSB], [http://www.ebi.ac.uk/pdbsum/5drk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5drk ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| - | <div style="background-color:#fffaf0;">
| + | == Function == |
| - | == Publication Abstract from PubMed == | + | [https://www.uniprot.org/uniprot/D5X329_THIK1 D5X329_THIK1] |
| - | Autotrophic bacteria rely on various mechanisms to increase intracellular concentrations of inorganic forms of carbon (i.e., bicarbonate and CO2) in order to improve the efficiency with which they can be converted to organic forms. Transmembrane bicarbonate transporters and carboxysomes play key roles in accumulating bicarbonate and CO2, but other regulatory elements of carbon concentration mechanisms in bacteria are less understood. In this study, after analyzing the genomic regions around alpha-type carboxysome operons, we characterize a protein that is conserved across these operons but has not been previously studied. On the basis of a series of apo- and ligand-bound crystal structures and supporting biochemical data, we show that this protein, which we refer to as the carboxysome-associated PII protein (CPII), represents a new and distinct subfamily within the broad superfamily of previously studied PII regulatory proteins, which are generally involved in regulating nitrogen metabolism in bacteria. CPII undergoes dramatic conformational changes in response to ADP binding, and the affinity for nucleotide binding is strongly enhanced by the presence of bicarbonate. CPII therefore appears to be a unique type of PII protein that senses bicarbonate availability, consistent with its apparent genomic association with the carboxysome and its constituents.
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| - | A PII-Like Protein Regulated by Bicarbonate: Structural and Biochemical Studies of the Carboxysome-Associated CPII Protein.,Wheatley NM, Eden KD, Ngo J, Rosinski JS, Sawaya MR, Cascio D, Collazo M, Hoveida H, Hubbell WL, Yeates TO J Mol Biol. 2016 Oct 9;428(20):4013-4030. doi: 10.1016/j.jmb.2016.07.015. Epub, 2016 Jul 25. PMID:27464895<ref>PMID:27464895</ref>
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| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
| + | |
| - | </div>
| + | |
| - | <div class="pdbe-citations 5drk" style="background-color:#fffaf0;"></div>
| + | |
| - | == References ==
| + | |
| - | <references/>
| + | |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Thik1]] | + | [[Category: Thiomonas intermedia K12]] |
| - | [[Category: Cascio, D]] | + | [[Category: Cascio D]] |
| - | [[Category: Ngo, J]] | + | [[Category: Ngo J]] |
| - | [[Category: Sawaya, M R]] | + | [[Category: Sawaya MR]] |
| - | [[Category: Wheatley, N M]] | + | [[Category: Wheatley NM]] |
| - | [[Category: Yeates, T O]] | + | [[Category: Yeates TO]] |
| - | [[Category: Acetate binding]]
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| - | [[Category: Adp hydrolysis]]
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| - | [[Category: Bicarbonate binding]]
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| - | [[Category: Carbon regulatory pii protein]]
| + | |
| - | [[Category: Cpii]]
| + | |
| - | [[Category: Metal binding protein]]
| + | |
| - | [[Category: Nitrogen regulatory pii protein]]
| + | |
| - | [[Category: Nucleotide binding]]
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