6bi4: Difference between revisions

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<StructureSection load='6bi4' size='340' side='right'caption='[[6bi4]], [[Resolution|resolution]] 2.91&Aring;' scene=''>
<StructureSection load='6bi4' size='340' side='right'caption='[[6bi4]], [[Resolution|resolution]] 2.91&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[6bi4]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_anthracis_(strain_ames) Bacillus anthracis (strain ames)]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4egb 4egb]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BI4 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6BI4 FirstGlance]. <br>
<table><tr><td colspan='2'>[[6bi4]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_anthracis_str._Ames Bacillus anthracis str. Ames]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4egb 4egb]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BI4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6BI4 FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=FRU:FRUCTOSE'>FRU</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]] 2.91&#8491;</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='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FRU:FRUCTOSE'>FRU</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PRD_900003:sucrose'>PRD_900003</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">rfbB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=198094 Bacillus anthracis (strain Ames)])</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=6bi4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6bi4 OCA], [https://pdbe.org/6bi4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6bi4 RCSB], [https://www.ebi.ac.uk/pdbsum/6bi4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6bi4 ProSAT]</span></td></tr>
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/dTDP-glucose_4,6-dehydratase dTDP-glucose 4,6-dehydratase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.46 4.2.1.46] </span></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6bi4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6bi4 OCA], [http://pdbe.org/6bi4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6bi4 RCSB], [http://www.ebi.ac.uk/pdbsum/6bi4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6bi4 ProSAT]</span></td></tr>
</table>
</table>
== Function ==
[https://www.uniprot.org/uniprot/A0A6L7HMN5_BACAN A0A6L7HMN5_BACAN]
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Many bacteria require l-rhamnose as a key cell wall component. This sugar is transferred to the cell wall using an activated donor dTDP-l-rhamnose, which is produced by the dTDP-l-rhamnose biosynthetic pathway. We determined the crystal structure of the second enzyme of this pathway dTDP-alpha-d-glucose 4,6-dehydratase (RfbB) from Bacillus anthracis. Interestingly, RfbB only crystallized in the presence of the third enzyme of the pathway RfbC; however, RfbC was not present in the crystal. Our work represents the first complete structural characterization of the four proteins of this pathway in a single Gram-positive bacterium.
Structure of the Bacillus anthracis dTDP-l-rhamnose biosynthetic pathway enzyme: dTDP-alpha-d-glucose 4,6-dehydratase, RfbB.,Gokey T, Halavaty AS, Minasov G, Anderson WF, Kuhn ML J Struct Biol. 2018 May;202(2):175-181. doi: 10.1016/j.jsb.2018.01.006. Epub 2018 , Jan 10. PMID:29331609<ref>PMID:29331609</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 6bi4" style="background-color:#fffaf0;"></div>


==See Also==
==See Also==
*[[DTDP-glucose 4%2C6-dehydratase|DTDP-glucose 4%2C6-dehydratase]]
*[[DTDP-glucose 4%2C6-dehydratase|DTDP-glucose 4%2C6-dehydratase]]
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Bacillus anthracis str. Ames]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: DTDP-glucose 4,6-dehydratase]]
[[Category: Anderson WF]]
[[Category: Anderson, W F]]
[[Category: Halavaty AS]]
[[Category: Structural genomic]]
[[Category: Kuhn M]]
[[Category: Halavaty, A S]]
[[Category: Minasov G]]
[[Category: Kuhn, M]]
[[Category: Shuvalova L]]
[[Category: Minasov, G]]
[[Category: Shuvalova, L]]
[[Category: 6-dehydratase]]
[[Category: Csgid]]
[[Category: Dtdp-glucose 4]]
[[Category: Lyase]]
[[Category: Nad]]
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