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3qxx
From Proteopedia
(Difference between revisions)
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==Crystal structure of dethiobiotin synthetase (BioD) from Helicobacter pylori complexed with GDP and 8-aminocaprylic acid== | ==Crystal structure of dethiobiotin synthetase (BioD) from Helicobacter pylori complexed with GDP and 8-aminocaprylic acid== | ||
| - | <StructureSection load='3qxx' size='340' side='right' caption='[[3qxx]], [[Resolution|resolution]] 1.36Å' scene=''> | + | <StructureSection load='3qxx' size='340' side='right'caption='[[3qxx]], [[Resolution|resolution]] 1.36Å' scene=''> |
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'>[[3qxx]] is a 1 chain structure with sequence from [ | + | <table><tr><td colspan='2'>[[3qxx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Campylobacter_pylori Campylobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QXX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3QXX FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=8AC:8-AMINOOCTANOIC+ACID'>8AC</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr> | + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8AC:8-AMINOOCTANOIC+ACID'>8AC</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2qmo|2qmo]], [[3mle|3mle]], [[3qxc|3qxc]], [[3qxh|3qxh]], [[3qxj|3qxj]], [[3qxs|3qxs]], [[3qy0|3qy0]]</td></tr> | + | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2qmo|2qmo]], [[3mle|3mle]], [[3qxc|3qxc]], [[3qxh|3qxh]], [[3qxj|3qxj]], [[3qxs|3qxs]], [[3qy0|3qy0]]</div></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">bioD, hp0029, HP_0029 ([ | + | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">bioD, hp0029, HP_0029 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=85962 Campylobacter pylori])</td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[ | + | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Dethiobiotin_synthase Dethiobiotin synthase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.3.3 6.3.3.3] </span></td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3qxx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qxx OCA], [https://pdbe.org/3qxx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3qxx RCSB], [https://www.ebi.ac.uk/pdbsum/3qxx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3qxx ProSAT]</span></td></tr> |
</table> | </table> | ||
== Function == | == Function == | ||
| - | [[ | + | [[https://www.uniprot.org/uniprot/BIOD_HELPY BIOD_HELPY]] Catalyzes a mechanistically unusual reaction, the ATP-dependent insertion of CO2 between the N7 and N8 nitrogen atoms of 7,8-diaminopelargonic acid (DAPA) to form an ureido ring (By similarity).[HAMAP-Rule:MF_00336] |
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
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==See Also== | ==See Also== | ||
| - | *[[Dethiobiotin synthetase|Dethiobiotin synthetase]] | + | *[[Dethiobiotin synthetase 3D structures|Dethiobiotin synthetase 3D structures]] |
== References == | == References == | ||
<references/> | <references/> | ||
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[[Category: Campylobacter pylori]] | [[Category: Campylobacter pylori]] | ||
[[Category: Dethiobiotin synthase]] | [[Category: Dethiobiotin synthase]] | ||
| + | [[Category: Large Structures]] | ||
[[Category: Chruszcz, M]] | [[Category: Chruszcz, M]] | ||
[[Category: Joachimiak, A]] | [[Category: Joachimiak, A]] | ||
Revision as of 09:57, 13 April 2022
Crystal structure of dethiobiotin synthetase (BioD) from Helicobacter pylori complexed with GDP and 8-aminocaprylic acid
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