3zoq: Difference between revisions
No edit summary |
No edit summary |
||
| (4 intermediate revisions by the same user not shown) | |||
| Line 1: | Line 1: | ||
==Structure of BsUDG-p56 complex== | ==Structure of BsUDG-p56 complex== | ||
<StructureSection load='3zoq' size='340' side='right' caption='[[3zoq]], [[Resolution|resolution]] 1.45Å' scene=''> | <StructureSection load='3zoq' size='340' side='right'caption='[[3zoq]], [[Resolution|resolution]] 1.45Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[3zoq]] is a 3 chain structure with sequence from [ | <table><tr><td colspan='2'>[[3zoq]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis_subsp._subtilis_str._168 Bacillus subtilis subsp. subtilis str. 168] and [https://en.wikipedia.org/wiki/Bacillus_virus_phi29 Bacillus virus phi29]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZOQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ZOQ FirstGlance]. <br> | ||
</td></tr><tr id=' | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.45Å</td></tr> | ||
<tr id=' | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></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=3zoq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zoq OCA], [https://pdbe.org/3zoq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3zoq RCSB], [https://www.ebi.ac.uk/pdbsum/3zoq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3zoq ProSAT]</span></td></tr> | |||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | |||
</table> | </table> | ||
== Function == | == Function == | ||
[ | [https://www.uniprot.org/uniprot/UNG_BACSU UNG_BACSU] Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine (By similarity). | ||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
| Line 18: | Line 18: | ||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
</div> | </div> | ||
<div class="pdbe-citations 3zoq" style="background-color:#fffaf0;"></div> | |||
==See Also== | ==See Also== | ||
*[[ | *[[DNA glycosylase 3D structures|DNA glycosylase 3D structures]] | ||
== References == | == References == | ||
<references/> | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Bacillus subtilis subsp. subtilis str. 168]] | [[Category: Bacillus subtilis subsp. subtilis str. 168]] | ||
[[Category: | [[Category: Bacillus virus phi29]] | ||
[[Category: Banos-Sanz | [[Category: Large Structures]] | ||
[[Category: Gonzalez | [[Category: Banos-Sanz JI]] | ||
[[Category: Mojardin | [[Category: Gonzalez B]] | ||
[[Category: Salas | [[Category: Mojardin L]] | ||
[[Category: Sanz-Aparicio | [[Category: Salas M]] | ||
[[Category: Sanz-Aparicio J]] | |||
Latest revision as of 14:08, 20 December 2023
Structure of BsUDG-p56 complexStructure of BsUDG-p56 complex
Structural highlights
FunctionUNG_BACSU Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine (By similarity). Publication Abstract from PubMedUracil-DNA glycosylase (UDG) is a key repair enzyme responsible for removing uracil residues from DNA. Interestingly, UDG is the only enzyme known to be inhibited by two different DNA mimic proteins: p56 encoded by the Bacillus subtilis phage 29 and the well-characterized protein Ugi encoded by the B. subtilis phage PBS1/PBS2. Atomic-resolution crystal structures of the B. subtilis UDG both free and in complex with p56, combined with site-directed mutagenesis analysis, allowed us to identify the key amino acid residues required for enzyme activity, DNA binding and complex formation. An important requirement for complex formation is the recognition carried out by p56 of the protruding Phe191 residue from B. subtilis UDG, whose side-chain is inserted into the DNA minor groove to replace the flipped-out uracil. A comparative analysis of both p56 and Ugi inhibitors enabled us to identify their common and distinctive features. Thereby, our results provide an insight into how two DNA mimic proteins with different structural and biochemical properties are able to specifically block the DNA-binding domain of the same enzyme. Crystal structure and functional insights into uracil-DNA glycosylase inhibition by phage 29 DNA mimic protein p56.,Banos-Sanz JI, Mojardin L, Sanz-Aparicio J, Lazaro JM, Villar L, Serrano-Heras G, Gonzalez B, Salas M Nucleic Acids Res. 2013 May 13. PMID:23671337[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
|
| ||||||||||||||||||