2kif

From Proteopedia

(Difference between revisions)

Revision as of 10:23, 18 July 2018

Solution NMR structure of an O6-methylguanine DNA methyltransferase family protein from Vibrio parahaemolyticus. Northeast Structural Genomics Consortium target VpR247.

Structural highlights

2kif is a 1 chain structure with sequence from Vibpq. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Gene:	A79_1377, VP0951 (VIBPQ)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[A6B4U8_VIBPH] Involved in DNA damage recognition. Binds DNA containing O(6)-methylguanine (PubMed:20212037). Binds to the damaged base and flips the base out of the DNA duplex into an extrahelical conformation, which allows processing by repair proteins (By similarity).[UniProtKB:P0AFP2]^[1]

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

Alkyltransferase-like proteins (ATLs) are a novel class of DNA repair proteins related to O(6)-alkylguanine-DNA alkyltransferases (AGTs) that tightly bind alkylated DNA and shunt the damaged DNA into the nucleotide excision repair pathway. Here, we present the first structure of a bacterial ATL, from Vibrio parahaemolyticus (vpAtl). We demonstrate that vpAtl adopts an AGT-like fold and that the protein is capable of tightly binding to O(6)-methylguanine-containing DNA and disrupting its repair by human AGT, a hallmark of ATLs. Mutation of highly conserved residues Tyr(23) and Arg(37) demonstrate their critical roles in a conserved mechanism of ATL binding to alkylated DNA. NMR relaxation data reveal a role for conformational plasticity in the guanine-lesion recognition cavity. Our results provide further evidence for the conserved role of ATLs in this primordial mechanism of DNA repair.

Structural basis of O6-alkylguanine recognition by a bacterial alkyltransferase-like DNA repair protein.,Aramini JM, Tubbs JL, Kanugula S, Rossi P, Ertekin A, Maglaqui M, Hamilton K, Ciccosanti CT, Jiang M, Xiao R, Soong TT, Rost B, Acton TB, Everett JK, Pegg AE, Tainer JA, Montelione GT J Biol Chem. 2010 Apr 30;285(18):13736-41. Epub 2010 Mar 8. PMID:20212037^[2]

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

References

↑ Aramini JM, Tubbs JL, Kanugula S, Rossi P, Ertekin A, Maglaqui M, Hamilton K, Ciccosanti CT, Jiang M, Xiao R, Soong TT, Rost B, Acton TB, Everett JK, Pegg AE, Tainer JA, Montelione GT. Structural basis of O6-alkylguanine recognition by a bacterial alkyltransferase-like DNA repair protein. J Biol Chem. 2010 Apr 30;285(18):13736-41. Epub 2010 Mar 8. PMID:20212037 doi:10.1074/jbc.M109.093591
↑ Aramini JM, Tubbs JL, Kanugula S, Rossi P, Ertekin A, Maglaqui M, Hamilton K, Ciccosanti CT, Jiang M, Xiao R, Soong TT, Rost B, Acton TB, Everett JK, Pegg AE, Tainer JA, Montelione GT. Structural basis of O6-alkylguanine recognition by a bacterial alkyltransferase-like DNA repair protein. J Biol Chem. 2010 Apr 30;285(18):13736-41. Epub 2010 Mar 8. PMID:20212037 doi:10.1074/jbc.M109.093591

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 See Also
6 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2kif"

@@ Line 1: / Line 1: @@
 ==Solution NMR structure of an O6-methylguanine DNA methyltransferase family protein from Vibrio parahaemolyticus. Northeast Structural Genomics Consortium target VpR247.==
 <StructureSection load='2kif' size='340' side='right' caption='[[2kif]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2kif]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Vibrio_parahaemolyticus_aq3810 Vibrio parahaemolyticus aq3810]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KIF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KIF FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2kif]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Vibpq Vibpq]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KIF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2KIF FirstGlance]. <br>
-</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">A79_1377, VP0951 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=419109 Vibrio parahaemolyticus AQ3810])</td></tr>
+</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">A79_1377, VP0951 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=419109 VIBPQ])</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=2kif FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kif OCA], [http://pdbe.org/2kif PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2kif RCSB], [http://www.ebi.ac.uk/pdbsum/2kif PDBsum]</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=2kif FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kif OCA], [http://pdbe.org/2kif PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2kif RCSB], [http://www.ebi.ac.uk/pdbsum/2kif PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2kif ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 12: / Line 13: @@
 Check<jmol>
   <jmolCheckbox>
-    <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ki/2kif_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ki/2kif_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
@@ Line 34: / Line 35: @@
 __TOC__
 </StructureSection>
-[[Category: Vibrio parahaemolyticus aq3810]]
+[[Category: Vibpq]]
 [[Category: Acton, T B]]
 [[Category: Aramini, J M]]

2kif

From Proteopedia

Revision as of 10:23, 18 July 2018

Solution NMR structure of an O6-methylguanine DNA methyltransferase family protein from Vibrio parahaemolyticus. Northeast Structural Genomics Consortium target VpR247.

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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