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| | <StructureSection load='6p78' size='340' side='right'caption='[[6p78]], [[Resolution|resolution]] 1.73Å' scene=''> | | <StructureSection load='6p78' size='340' side='right'caption='[[6p78]], [[Resolution|resolution]] 1.73Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[6p78]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Clostridium_spiroforme_atcc_29900 Clostridium spiroforme atcc 29900]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6P78 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6P78 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6p78]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridium_spiroforme_DSM_1552 Clostridium spiroforme DSM 1552]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6P78 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6P78 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=QUG:2-amino-5-({[(1S,4S,5S)-4,5-dihydroxycyclopent-2-en-1-yl]amino}methyl)-1,7-dihydro-4H-pyrrolo[2,3-d]pyrimidin-4-one'>QUG</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</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]] 1.726Å</td></tr> |
| - | <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=SMC:S-METHYLCYSTEINE'>SMC</scene></td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=QUG:2-azanyl-5-[[[(1~{S},4~{S},5~{S})-4,5-bis(oxidanyl)cyclopent-2-en-1-yl]amino]methyl]-1,7-dihydropyrrolo[2,3-d]pyrimidin-4-one'>QUG</scene>, <scene name='pdbligand=SAM:S-ADENOSYLMETHIONINE'>SAM</scene>, <scene name='pdbligand=SMC:S-METHYLCYSTEINE'>SMC</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">CLOSPI_01524 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=428126 Clostridium spiroforme ATCC 29900])</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=6p78 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6p78 OCA], [https://pdbe.org/6p78 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6p78 RCSB], [https://www.ebi.ac.uk/pdbsum/6p78 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6p78 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=6p78 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6p78 OCA], [http://pdbe.org/6p78 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6p78 RCSB], [http://www.ebi.ac.uk/pdbsum/6p78 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6p78 ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/B1C2R2_9FIRM B1C2R2_9FIRM] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Clostridium spiroforme atcc 29900]] | |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Almo, S C]] | + | [[Category: Almo SC]] |
| - | [[Category: Grove, T L]] | + | [[Category: Grove TL]] |
| - | [[Category: Iron 4 sulfur cluster binding]]
| + | |
| - | [[Category: C-n lyase activity]]
| + | |
| - | [[Category: Lyase]]
| + | |
| - | [[Category: Metal ion binding]]
| + | |
| - | [[Category: Radical sam enzyme]]
| + | |
| Structural highlights
Function
B1C2R2_9FIRM
Publication Abstract from PubMed
Queuosine (Q) is a complex tRNA modification widespread in eukaryotes and bacteria that contributes to the efficiency and accuracy of protein synthesis. Eukaryotes are not capable of Q synthesis and rely on salvage of the queuine base (q) as a Q precursor. While many bacteria are capable of Q de novo synthesis, salvage of the prokaryotic Q precursors preQ0 and preQ1 also occurs. With the exception of Escherichia coli YhhQ, shown to transport preQ0 and preQ1, the enzymes and transporters involved in Q salvage and recycling have not been well described. We discovered and characterized 2 Q salvage pathways present in many pathogenic and commensal bacteria. The first, found in the intracellular pathogen Chlamydia trachomatis, uses YhhQ and tRNA guanine transglycosylase (TGT) homologs that have changed substrate specificities to directly salvage q, mimicking the eukaryotic pathway. The second, found in bacteria from the gut flora such as Clostridioides difficile, salvages preQ1 from q through an unprecedented reaction catalyzed by a newly defined subgroup of the radical-SAM enzyme family. The source of q can be external through transport by members of the energy-coupling factor (ECF) family or internal through hydrolysis of Q by a dedicated nucleosidase. This work reinforces the concept that hosts and members of their associated microbiota compete for the salvage of Q precursors micronutrients.
Discovery of novel bacterial queuine salvage enzymes and pathways in human pathogens.,Yuan Y, Zallot R, Grove TL, Payan DJ, Martin-Verstraete I, Sepic S, Balamkundu S, Neelakandan R, Gadi VK, Liu CF, Swairjo MA, Dedon PC, Almo SC, Gerlt JA, de Crecy-Lagard V Proc Natl Acad Sci U S A. 2019 Sep 17;116(38):19126-19135. doi:, 10.1073/pnas.1909604116. Epub 2019 Sep 3. PMID:31481610[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Yuan Y, Zallot R, Grove TL, Payan DJ, Martin-Verstraete I, Sepic S, Balamkundu S, Neelakandan R, Gadi VK, Liu CF, Swairjo MA, Dedon PC, Almo SC, Gerlt JA, de Crecy-Lagard V. Discovery of novel bacterial queuine salvage enzymes and pathways in human pathogens. Proc Natl Acad Sci U S A. 2019 Sep 17;116(38):19126-19135. doi:, 10.1073/pnas.1909604116. Epub 2019 Sep 3. PMID:31481610 doi:http://dx.doi.org/10.1073/pnas.1909604116
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