5itx: Difference between revisions

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'''Unreleased structure'''


The entry 5itx is ON HOLD  until Paper Publication
==Crystal Structure of Human NEIL1(P2G R242K) bound to duplex DNA containing Thymine Glycol==
 
<StructureSection load='5itx' size='340' side='right' caption='[[5itx]], [[Resolution|resolution]] 2.65&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'>[[5itx]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ITX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ITX FirstGlance]. <br>
Description: Crystal Structure of Human NEIL1(P2G R242K) bound to duplex DNA containing Thymine Glycol
</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=CTG:(5R,6S)-5,6-DIHYDRO-5,6-DIHYDROXYTHYMIDINE-5-MONOPHOSPHATE'>CTG</scene></td></tr>
[[Category: Unreleased Structures]]
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5ity|5ity]], [[5itq|5itq]], [[5itt|5itt]], [[5itr|5itr]], [[5itu|5itu]]</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=5itx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5itx OCA], [http://pdbe.org/5itx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5itx RCSB], [http://www.ebi.ac.uk/pdbsum/5itx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5itx 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: Liu, M]]
[[Category: Zhu, C]]
[[Category: Lu, L]]
[[Category: Zhang, J]]
[[Category: Song, J]]
[[Category: Stovicek, O]]
[[Category: Stovicek, O]]
[[Category: Gao, Y]]
[[Category: Lu, L]]
[[Category: Yi, C]]
[[Category: Yi, C]]
[[Category: Song, J]]
[[Category: Yue, Z]]
[[Category: Yue, Z]]
[[Category: Zhang, J]]
[[Category: Zhu, C]]
[[Category: Zong, S]]
[[Category: Zong, S]]
[[Category: Dna binding protein-dna complex]]
[[Category: Dna glycosylase neil1 fpg nei base excision repair]]

Revision as of 21:02, 13 July 2016

Crystal Structure of Human NEIL1(P2G R242K) bound to duplex DNA containing Thymine GlycolCrystal Structure of Human NEIL1(P2G R242K) bound to duplex DNA containing Thymine Glycol

Structural highlights

5itx is a 6 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
NonStd Res:
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

  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:http://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:http://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:http://dx.doi.org/10.1074/jbc.M308658200

5itx, resolution 2.65Å

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