5zhz

From Proteopedia

(Difference between revisions)

Current revision

Crystal structure of the apurinic/apyrimidinic endonuclease IV from Mycobacterium tuberculosis

Structural highlights

5zhz is a 1 chain structure with sequence from Mycobacterium tuberculosis H37Rv. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.18Å
Ligands:	,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

END4_MYCTU Endonuclease IV plays a role in DNA repair. It cleaves phosphodiester bonds at apurinic or apyrimidinic sites (AP sites) to produce new 5'-ends that are base-free deoxyribose 5-phosphate residues. It preferentially attacks modified AP sites created by bleomycin and neocarzinostatin.[HAMAP-Rule:MF_00152]

Publication Abstract from PubMed

Endonuclease IV is a typical endonuclease of the apurinic-apyrimidinic (AP) or abasic endonuclease superfamily. It repairs damaged DNA through base excision repair by cleaving the DNA backbone immediately 5' of an AP site. In Mycobacterium tuberculosis, endonuclease IV is the major AP endonuclease. This enzyme is absent from mammalian cells, making it an attractive target for anti-tuberculosis drug development. In this study, the structure of the recombinant endonuclease IV from M. tuberculosis (MtbEndo IV) was determined at a high resolution of 1.18A. MtbEndo IV was found to have a classical alpha8beta8-fold TIM barrel with loops on its surface connecting the alpha-helices and beta-strands that constitute a groove for DNA binding. Three zinc ions were identified at the active site. A comparison between the structures of MtbEndo IV and Escherichia coli End IV suggested that Gln32 of MtbEndo IV may plays a role in regulating substrate binding.

Crystal structure of the apurinic/apyrimidinic endonuclease IV from Mycobacterium tuberculosis.,Zhang W, Xu Y, Yan M, Li S, Wang H, Yang H, Zhou W, Rao Z Biochem Biophys Res Commun. 2018 Mar 25;498(1):111-118. doi:, 10.1016/j.bbrc.2018.02.181. Epub 2018 Feb 27. PMID:29496453^[1]

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

References

↑ Zhang W, Xu Y, Yan M, Li S, Wang H, Yang H, Zhou W, Rao Z. Crystal structure of the apurinic/apyrimidinic endonuclease IV from Mycobacterium tuberculosis. Biochem Biophys Res Commun. 2018 Mar 25;498(1):111-118. doi:, 10.1016/j.bbrc.2018.02.181. Epub 2018 Feb 27. PMID:29496453 doi:http://dx.doi.org/10.1016/j.bbrc.2018.02.181

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5zhz"

@@ Line 3: / Line 3: @@
 <StructureSection load='5zhz' size='340' side='right'caption='[[5zhz]], [[Resolution|resolution]] 1.18&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5zhz]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZHZ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5ZHZ FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5zhz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis_H37Rv Mycobacterium tuberculosis H37Rv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5ZHZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5ZHZ FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.18&#8491;</td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Deoxyribonuclease_IV_(phage-T(4)-induced) Deoxyribonuclease IV (phage-T(4)-induced)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.21.2 3.1.21.2] </span></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5zhz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zhz OCA], [http://pdbe.org/5zhz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5zhz RCSB], [http://www.ebi.ac.uk/pdbsum/5zhz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5zhz 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=5zhz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5zhz OCA], [https://pdbe.org/5zhz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5zhz RCSB], [https://www.ebi.ac.uk/pdbsum/5zhz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5zhz ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/END4_MYCTU END4_MYCTU]] Endonuclease IV plays a role in DNA repair. It cleaves phosphodiester bonds at apurinic or apyrimidinic sites (AP sites) to produce new 5'-ends that are base-free deoxyribose 5-phosphate residues. It preferentially attacks modified AP sites created by bleomycin and neocarzinostatin.[HAMAP-Rule:MF_00152]
+[https://www.uniprot.org/uniprot/END4_MYCTU END4_MYCTU] Endonuclease IV plays a role in DNA repair. It cleaves phosphodiester bonds at apurinic or apyrimidinic sites (AP sites) to produce new 5'-ends that are base-free deoxyribose 5-phosphate residues. It preferentially attacks modified AP sites created by bleomycin and neocarzinostatin.[HAMAP-Rule:MF_00152]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 19: / Line 19: @@
 </div>
 <div class="pdbe-citations 5zhz" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Apurinic/apyrimidinic endonuclease 3D structures|Apurinic/apyrimidinic endonuclease 3D structures]]
 == References ==
 <references/>
@@ Line 24: / Line 27: @@
 </StructureSection>
 [[Category: Large Structures]]
-[[Category: Li, S]]
+[[Category: Mycobacterium tuberculosis H37Rv]]
-[[Category: Rao, Z]]
+[[Category: Li S]]
-[[Category: Wang, H]]
+[[Category: Rao Z]]
-[[Category: Xu, Y]]
+[[Category: Wang H]]
-[[Category: Yan, M]]
+[[Category: Xu Y]]
-[[Category: Yang, H]]
+[[Category: Yan M]]
-[[Category: Zhang, W]]
+[[Category: Yang H]]
-[[Category: Zhou, W]]
+[[Category: Zhang W]]
-[[Category: Dna binding protein]]
+[[Category: Zhou W]]
-[[Category: Dna repair]]
-[[Category: Endonuclease iv]]
-[[Category: Tim fold]]

5zhz

From Proteopedia

Current revision

Crystal structure of the apurinic/apyrimidinic endonuclease IV from Mycobacterium tuberculosis

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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