1udi

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[[Image:1udi.jpg|left|200px]]<br /><applet load="1udi" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="1udi, resolution 2.7&Aring;" />
 
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'''NUCLEOTIDE MIMICRY IN THE CRYSTAL STRUCTURE OF THE URACIL-DNA GLYCOSYLASE-URACIL GLYCOSYLASE INHIBITOR PROTEIN COMPLEX'''<br />
 
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==Overview==
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==NUCLEOTIDE MIMICRY IN THE CRYSTAL STRUCTURE OF THE URACIL-DNA GLYCOSYLASE-URACIL GLYCOSYLASE INHIBITOR PROTEIN COMPLEX==
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The Bacillus subtilis bacteriophages PBS-1 and PBS-2 protect their uracil-containing DNA by expressing an inhibitor protein (UGI) which inactivates the host uracil-DNA glycosylase (UDGase) base-excision repair enzyme. Also, PBS1/2 UGI efficiently inactivates UDGases from other biological sources, including the enzyme from herpes simplex virus type-1 (HSV-1). The crystal structure of the HSV-1 UDGase-PBS1 UGI complex at 2.7 angstrum reveals an alpha-beta-alpha sandwich structure for UGI which interacts with conserved regions of UDGase involved in DNA binding, and directly mimics protein-DNA interactions observed in the UDGase-oligonucleotide complex. The inhibitor completely blocks access to the active site of UDGase, but makes no direct contact with the uracil-binding pocket itself.
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<StructureSection load='1udi' size='340' side='right'caption='[[1udi]], [[Resolution|resolution]] 2.70&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1udi]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_virus_PBS1 Bacillus virus PBS1] and [https://en.wikipedia.org/wiki/Human_alphaherpesvirus_1_strain_17 Human alphaherpesvirus 1 strain 17]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UDI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UDI FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.7&#8491;</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1udi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1udi OCA], [https://pdbe.org/1udi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1udi RCSB], [https://www.ebi.ac.uk/pdbsum/1udi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1udi ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/UNG_HHV11 UNG_HHV11] Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or deamination of cytosine. Therefore may reduce deleterious uracil incorporation into the viral genome, particularly, in terminally differentiated neurons which lack DNA repair enzymes.<ref>PMID:7552746</ref> <ref>PMID:16306042</ref>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ud/1udi_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1udi ConSurf].
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<div style="clear:both"></div>
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==About this Structure==
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==See Also==
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1UDI is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Human_herpesvirus_4 Human herpesvirus 4] and [http://en.wikipedia.org/wiki/Phage_pbs1 Phage pbs1]. Active as [http://en.wikipedia.org/wiki/Uridine_nucleosidase Uridine nucleosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.2.3 3.2.2.3] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UDI OCA].
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*[[DNA glycosylase 3D structures|DNA glycosylase 3D structures]]
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*[[Uracil glycosylase inhibitor|Uracil glycosylase inhibitor]]
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==Reference==
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== References ==
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Nucleotide mimicry in the crystal structure of the uracil-DNA glycosylase-uracil glycosylase inhibitor protein complex., Savva R, Pearl LH, Nat Struct Biol. 1995 Sep;2(9):752-7. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=7552746 7552746]
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<references/>
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[[Category: Human herpesvirus 4]]
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__TOC__
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[[Category: Phage pbs1]]
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</StructureSection>
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[[Category: Protein complex]]
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[[Category: Bacillus virus PBS1]]
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[[Category: Uridine nucleosidase]]
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[[Category: Human alphaherpesvirus 1 strain 17]]
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[[Category: Pearl, L H.]]
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[[Category: Large Structures]]
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[[Category: Savva, R.]]
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[[Category: Pearl LH]]
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[[Category: complex (hydrolase/inhibitor)]]
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[[Category: Savva R]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 15:23:19 2008''
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Current revision

NUCLEOTIDE MIMICRY IN THE CRYSTAL STRUCTURE OF THE URACIL-DNA GLYCOSYLASE-URACIL GLYCOSYLASE INHIBITOR PROTEIN COMPLEX

PDB ID 1udi

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