2gxa: Difference between revisions

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-[[Image:2gxa.gif|left|200px]]
-<!--
-The line below this paragraph, containing "STRUCTURE_2gxa", creates the "Structure Box" on the page.
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-or leave the SCENE parameter empty for the default display.
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-{{STRUCTURE_2gxa|  PDB=2gxa  |  SCENE=  }}
-'''Crystal structure of papillomavirus E1 hexameric helicase with ssDNA and MgADP'''
+==Crystal structure of papillomavirus E1 hexameric helicase with ssDNA and MgADP==
+<StructureSection load='2gxa' size='340' side='right'caption='[[2gxa]], [[Resolution|resolution]] 3.15&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2gxa]] is a 14 chain structure with sequence from [https://en.wikipedia.org/wiki/Deltapapillomavirus_4 Deltapapillomavirus 4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GXA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GXA FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.15&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></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=2gxa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gxa OCA], [https://pdbe.org/2gxa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2gxa RCSB], [https://www.ebi.ac.uk/pdbsum/2gxa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2gxa ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/VE1_BPV1 VE1_BPV1] ATP-dependent DNA helicase required for initiation of viral DNA replication. It forms a complex with the viral E2 protein. The E1-E2 complex binds to the replication origin which contains binding sites for both proteins.
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gx/2gxa_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
+</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=2gxa ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The E1 protein of papillomavirus is a hexameric ring helicase belonging to the AAA + family. The mechanism that couples the ATP cycle to DNA translocation has been unclear. Here we present the crystal structure of the E1 hexamer with single-stranded DNA discretely bound within the hexamer channel and nucleotides at the subunit interfaces. This structure demonstrates that only one strand of DNA passes through the hexamer channel and that the DNA-binding hairpins of each subunit form a spiral 'staircase' that sequentially tracks the oligonucleotide backbone. Consecutively grouped ATP, ADP and apo configurations correlate with the height of the hairpin, suggesting a straightforward DNA translocation mechanism. Each subunit sequentially progresses through ATP, ADP and apo states while the associated DNA-binding hairpin travels from the top staircase position to the bottom, escorting one nucleotide of single-stranded DNA through the channel. These events permute sequentially around the ring from one subunit to the next.
-==Overview==
+Mechanism of DNA translocation in a replicative hexameric helicase.,Enemark EJ, Joshua-Tor L Nature. 2006 Jul 20;442(7100):270-5. PMID:16855583<ref>PMID:16855583</ref>
-The E1 protein of papillomavirus is a hexameric ring helicase belonging to the AAA + family. The mechanism that couples the ATP cycle to DNA translocation has been unclear. Here we present the crystal structure of the E1 hexamer with single-stranded DNA discretely bound within the hexamer channel and nucleotides at the subunit interfaces. This structure demonstrates that only one strand of DNA passes through the hexamer channel and that the DNA-binding hairpins of each subunit form a spiral 'staircase' that sequentially tracks the oligonucleotide backbone. Consecutively grouped ATP, ADP and apo configurations correlate with the height of the hairpin, suggesting a straightforward DNA translocation mechanism. Each subunit sequentially progresses through ATP, ADP and apo states while the associated DNA-binding hairpin travels from the top staircase position to the bottom, escorting one nucleotide of single-stranded DNA through the channel. These events permute sequentially around the ring from one subunit to the next.
-==About this Structure==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-GXA is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bovine_papillomavirus_type_1 Bovine papillomavirus type 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GXA OCA].
+</div>
+<div class="pdbe-citations 2gxa" style="background-color:#fffaf0;"></div>
-==Reference==
+==See Also==
-Mechanism of DNA translocation in a replicative hexameric helicase., Enemark EJ, Joshua-Tor L, Nature. 2006 Jul 20;442(7100):270-5. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16855583 16855583]
+*[[Helicase 3D structures|Helicase 3D structures]]
-[[Category: Bovine papillomavirus type 1]]
+*[[Replication protein E1|Replication protein E1]]
-[[Category: Single protein]]
+== References ==
-[[Category: Enemark, E J.]]
+<references/>
-[[Category: Joshua-Tor, L.]]
+__TOC__
-[[Category: Aaa+]]
+</StructureSection>
-[[Category: Atpase]]
+[[Category: Deltapapillomavirus 4]]
-[[Category: Dna helicase]]
+[[Category: Large Structures]]
-[[Category: Initiator protein]]
+[[Category: Enemark EJ]]
-[[Category: Replication]]
+[[Category: Joshua-Tor L]]
-[[Category: Virus]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 05:38:38 2008''