5itr: Difference between revisions

Revision as of 18:01, 13 July 2016

Crystal Structure of Human NEIL1(P2G) bound to duplex DNA containing THF

Structural highlights

5itr is a 6 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Related:	5itx, 5ity, 5itq, 5itt, 5itu
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[NEIL1_HUMAN] Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Acts as DNA glycosylase that recognizes and removes damaged bases. Has a preference for oxidized pyrimidines, such as thymine glycol, formamidopyrimidine (Fapy) and 5-hydroxyuracil. Has marginal activity towards 8-oxoguanine. Has AP (apurinic/apyrimidinic) lyase activity and introduces nicks in the DNA strand. Cleaves the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Has DNA glycosylase/lyase activity towards mismatched uracil and thymine, in particular in U:C and T:C mismatches.^[1] ^[2] ^[3] ^[4]

References

↑ Takao M, Kanno S, Kobayashi K, Zhang QM, Yonei S, van der Horst GT, Yasui A. A back-up glycosylase in Nth1 knock-out mice is a functional Nei (endonuclease VIII) homologue. J Biol Chem. 2002 Nov 1;277(44):42205-13. Epub 2002 Aug 27. PMID:12200441 doi:https://dx.doi.org/10.1074/jbc.M206884200
↑ Bandaru V, Sunkara S, Wallace SS, Bond JP. A novel human DNA glycosylase that removes oxidative DNA damage and is homologous to Escherichia coli endonuclease VIII. DNA Repair (Amst). 2002 Jul 17;1(7):517-29. PMID:12509226
↑ Hazra TK, Izumi T, Boldogh I, Imhoff B, Kow YW, Jaruga P, Dizdaroglu M, Mitra S. Identification and characterization of a human DNA glycosylase for repair of modified bases in oxidatively damaged DNA. Proc Natl Acad Sci U S A. 2002 Mar 19;99(6):3523-8. PMID:11904416 doi:https://dx.doi.org/10.1073/pnas.062053799
↑ Dou H, Mitra S, Hazra TK. Repair of oxidized bases in DNA bubble structures by human DNA glycosylases NEIL1 and NEIL2. J Biol Chem. 2003 Dec 12;278(50):49679-84. Epub 2003 Sep 30. PMID:14522990 doi:https://dx.doi.org/10.1074/jbc.M308658200

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OCA

[1] Takao M, Kanno S, Kobayashi K, Zhang QM, Yonei S, van der Horst GT, Yasui A. A back-up glycosylase in Nth1 knock-out mice is a functional Nei (endonuclease VIII) homologue. J Biol Chem. 2002 Nov 1;277(44):42205-13. Epub 2002 Aug 27. PMID:12200441 doi:https://dx.doi.org/10.1074/jbc.M206884200

[2] Bandaru V, Sunkara S, Wallace SS, Bond JP. A novel human DNA glycosylase that removes oxidative DNA damage and is homologous to Escherichia coli endonuclease VIII. DNA Repair (Amst). 2002 Jul 17;1(7):517-29. PMID:12509226

[3] Hazra TK, Izumi T, Boldogh I, Imhoff B, Kow YW, Jaruga P, Dizdaroglu M, Mitra S. Identification and characterization of a human DNA glycosylase for repair of modified bases in oxidatively damaged DNA. Proc Natl Acad Sci U S A. 2002 Mar 19;99(6):3523-8. PMID:11904416 doi:https://dx.doi.org/10.1073/pnas.062053799

[4] Dou H, Mitra S, Hazra TK. Repair of oxidized bases in DNA bubble structures by human DNA glycosylases NEIL1 and NEIL2. J Biol Chem. 2003 Dec 12;278(50):49679-84. Epub 2003 Sep 30. PMID:14522990 doi:https://dx.doi.org/10.1074/jbc.M308658200

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[2]

[3]

[4]

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 5itr is ON HOLD  until Paper Publication
+==Crystal Structure of Human NEIL1(P2G) bound to duplex DNA containing THF==
+<StructureSection load='5itr' size='340' side='right' caption='[[5itr]], [[Resolution|resolution]] 2.46&Aring;' scene=''>
-Authors: Zhu, C., Lu, L., Zhang, J., Yue, Z., Song, J., Zong, S., Liu, M., Stovicek, O., Gao, Y., Yi, C.
+== Structural highlights ==
+<table><tr><td colspan='2'>[[5itr]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ITR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ITR FirstGlance]. <br>
-Description: Crystal Structure of Human NEIL1(P2G) bound to duplex DNA containing THF
+</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5itx|5itx]], [[5ity|5ity]], [[5itq|5itq]], [[5itt|5itt]], [[5itu|5itu]]</td></tr>
-[[Category: Unreleased Structures]]
+<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=5itr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5itr OCA], [http://pdbe.org/5itr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5itr RCSB], [http://www.ebi.ac.uk/pdbsum/5itr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5itr ProSAT]</span></td></tr>
+</table>
+== Function ==
+[[http://www.uniprot.org/uniprot/NEIL1_HUMAN NEIL1_HUMAN]] Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Acts as DNA glycosylase that recognizes and removes damaged bases. Has a preference for oxidized pyrimidines, such as thymine glycol, formamidopyrimidine (Fapy) and 5-hydroxyuracil. Has marginal activity towards 8-oxoguanine. Has AP (apurinic/apyrimidinic) lyase activity and introduces nicks in the DNA strand. Cleaves the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Has DNA glycosylase/lyase activity towards mismatched uracil and thymine, in particular in U:C and T:C mismatches.<ref>PMID:12200441</ref> <ref>PMID:12509226</ref> <ref>PMID:11904416</ref> <ref>PMID:14522990</ref>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Gao, Y]]
 [[Category: Liu, M]]
-[[Category: Zhu, C]]
+[[Category: Lu, L]]
-[[Category: Zhang, J]]
+[[Category: Song, J]]
 [[Category: Stovicek, O]]
-[[Category: Gao, Y]]
-[[Category: Lu, L]]
 [[Category: Yi, C]]
-[[Category: Song, J]]
 [[Category: Yue, Z]]
+[[Category: Zhang, J]]
+[[Category: Zhu, C]]
 [[Category: Zong, S]]
+[[Category: Dna binding protein-dna complex]]
+[[Category: Dna glycosylase neil1 fpg nei base excision repair]]

5itr: Difference between revisions

Revision as of 18:01, 13 July 2016

Crystal Structure of Human NEIL1(P2G) bound to duplex DNA containing THF

Structural highlights

Function

References

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