3i0x: Difference between revisions

Revision as of 12:06, 13 October 2021

Crystal structure of Clostridium acetobutylicum 8-oxoguanine glycosylase/lyase in complex with dsDNA containing adenine opposite to 8-oxoG

Structural highlights

3i0x is a 3 chain structure with sequence from "clostridium_acetobutyricum"_prevot_1940 "clostridium acetobutyricum" prevot 1940. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	NA
NonStd Res:	8OG
Related:	3i0w
Gene:	CAC2707, CA_C2707 ("Clostridium acetobutyricum" Prevot 1940)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

7,8-Dihydro-8-oxoguanine (8-oxoG) is the major oxidative product of guanine and the most prevalent base lesion observed in DNA molecules. Because 8-oxoG has the capability to form a Hoogsteen pair with adenine (8-oxoG:A) in addition to a normal Watson-Crick pair with cytosine (8-oxoG:C), this lesion can lead to a G:C-->T:A transversion after replication. However, 8-oxoG is recognized and excised by the 8-oxoguanine DNA glycosylase (Ogg) of the base excision repair pathway. Members of the Ogg1 family usually display a strong preference for a C opposite the lesion. In contrast, the atypical Ogg1 from Clostridium actetobutylicum (CacOgg) can excise 8-oxoG when paired with either one of the four bases, albeit with a preference for C and A. Here we describe the first high-resolution crystal structures of CacOgg in complex with duplex DNA containing the 8-oxoG lesion paired to cytosine and to adenine. A structural comparison with human OGG1 provides a rationale for the lack of opposite base specificity displayed by the bacterial Ogg.

Structural basis for the lack of opposite base specificity of Clostridium acetobutylicum 8-oxoguanine DNA glycosylase.,Faucher F, Wallace SS, Doublie S DNA Repair (Amst). 2009 Nov 2;8(11):1283-9. Epub 2009 Sep 10. PMID:19747886^[1]

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

References

↑ Faucher F, Wallace SS, Doublie S. Structural basis for the lack of opposite base specificity of Clostridium acetobutylicum 8-oxoguanine DNA glycosylase. DNA Repair (Amst). 2009 Nov 2;8(11):1283-9. Epub 2009 Sep 10. PMID:19747886 doi:10.1016/j.dnarep.2009.08.002

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Faucher F, Wallace SS, Doublie S. Structural basis for the lack of opposite base specificity of Clostridium acetobutylicum 8-oxoguanine DNA glycosylase. DNA Repair (Amst). 2009 Nov 2;8(11):1283-9. Epub 2009 Sep 10. PMID:19747886 doi:10.1016/j.dnarep.2009.08.002

[1]

@@ Line 1: / Line 1: @@
 ==Crystal structure of Clostridium acetobutylicum 8-oxoguanine glycosylase/lyase in complex with dsDNA containing adenine opposite to 8-oxoG==
-<StructureSection load='3i0x' size='340' side='right' caption='[[3i0x]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
+<StructureSection load='3i0x' size='340' side='right'caption='[[3i0x]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3i0x]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"clostridium_acetobutyricum"_prevot_1940 "clostridium acetobutyricum" prevot 1940]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3I0X OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3I0X FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3i0x]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/"clostridium_acetobutyricum"_prevot_1940 "clostridium acetobutyricum" prevot 1940]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3I0X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3I0X FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
 <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=8OG:8-OXO-2-DEOXY-GUANOSINE-5-MONOPHOSPHATE'>8OG</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3i0w|3i0w]]</td></tr>
+<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3i0w|3i0w]]</div></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">CAC2707, CA_C2707 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1488 "Clostridium acetobutyricum" Prevot 1940])</td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">CAC2707, CA_C2707 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1488 "Clostridium acetobutyricum" Prevot 1940])</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=3i0x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3i0x OCA], [http://pdbe.org/3i0x PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3i0x RCSB], [http://www.ebi.ac.uk/pdbsum/3i0x PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3i0x ProSAT]</span></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=3i0x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3i0x OCA], [https://pdbe.org/3i0x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3i0x RCSB], [https://www.ebi.ac.uk/pdbsum/3i0x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3i0x ProSAT]</span></td></tr>
 </table>
 == Evolutionary Conservation ==
@@ Line 31: / Line 31: @@
 ==See Also==
-*[[DNA glycosylase|DNA glycosylase]]
+*[[DNA glycosylase 3D structures|DNA glycosylase 3D structures]]
 == References ==
 <references/>
@@ Line 37: / Line 37: @@
 </StructureSection>
 [[Category: Clostridium acetobutyricum prevot 1940]]
+[[Category: Large Structures]]
 [[Category: Doublie, S]]
 [[Category: Faucher, F]]

3i0x: Difference between revisions

Revision as of 12:06, 13 October 2021

Crystal structure of Clostridium acetobutylicum 8-oxoguanine glycosylase/lyase in complex with dsDNA containing adenine opposite to 8-oxoG

Structural highlights

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

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