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4q84

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Revision as of 07:47, 8 February 2023

Apo YcaO

Structural highlights

4q84 is a 2 chain structure with sequence from Escherichia coli K-12. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

YCAO_ECOLI Involved in beta-methylthiolation of ribosomal protein S12.

Publication Abstract from PubMed

Despite intensive research, the cyclodehydratase responsible for azoline biogenesis in thiazole/oxazole-modified microcin (TOMM) natural products remains enigmatic. The collaboration of two proteins, C and D, is required for cyclodehydration. The C protein is homologous to E1 ubiquitin-activating enzymes, whereas the D protein is within the YcaO superfamily. Recent studies have demonstrated that TOMM YcaOs phosphorylate amide carbonyl oxygens to facilitate azoline formation. Here we report the X-ray crystal structure of an uncharacterized YcaO from Escherichia coli (Ec-YcaO). Ec-YcaO harbors an unprecedented fold and ATP-binding motif. This motif is conserved among TOMM YcaOs and is required for cyclodehydration. Furthermore, we demonstrate that the C protein regulates substrate binding and catalysis and that the proline-rich C terminus of the D protein is involved in C protein recognition and catalysis. This study identifies the YcaO active site and paves the way for the characterization of the numerous YcaO domains not associated with TOMM biosynthesis.

Discovery of a new ATP-binding motif involved in peptidic azoline biosynthesis.,Dunbar KL, Chekan JR, Cox CL, Burkhart BJ, Nair SK, Mitchell DA Nat Chem Biol. 2014 Aug 17. doi: 10.1038/nchembio.1608. PMID:25129028^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Dunbar KL, Chekan JR, Cox CL, Burkhart BJ, Nair SK, Mitchell DA. Discovery of a new ATP-binding motif involved in peptidic azoline biosynthesis. Nat Chem Biol. 2014 Aug 17. doi: 10.1038/nchembio.1608. PMID:25129028 doi:http://dx.doi.org/10.1038/nchembio.1608

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4q84"

Categories: Escherichia coli K-12 | Large Structures | Chekan JR | Nair SK

@@ Line 3: / Line 3: @@
 <StructureSection load='4q84' size='340' side='right'caption='[[4q84]], [[Resolution|resolution]] 2.64&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4q84]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Q84 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Q84 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4q84]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Q84 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4Q84 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4q85|4q85]], [[4q86|4q86]]</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=4q84 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4q84 OCA], [https://pdbe.org/4q84 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4q84 RCSB], [https://www.ebi.ac.uk/pdbsum/4q84 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4q84 ProSAT]</span></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ycaO, b0905, JW0888 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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=4q84 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4q84 OCA], [http://pdbe.org/4q84 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4q84 RCSB], [http://www.ebi.ac.uk/pdbsum/4q84 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4q84 ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/YCAO_ECOLI YCAO_ECOLI]] Involved in beta-methylthiolation of ribosomal protein S12.
+[https://www.uniprot.org/uniprot/YCAO_ECOLI YCAO_ECOLI] Involved in beta-methylthiolation of ribosomal protein S12.
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 24: / Line 22: @@
 __TOC__
 </StructureSection>
-[[Category: Ecoli]]
+[[Category: Escherichia coli K-12]]
 [[Category: Large Structures]]
-[[Category: Chekan, J R]]
+[[Category: Chekan JR]]
-[[Category: Nair, S K]]
+[[Category: Nair SK]]
-[[Category: Protein binding]]
-[[Category: Ycao atp binding domain]]

4q84

From Proteopedia

Revision as of 07:47, 8 February 2023

Apo YcaO

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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