1x9s: Difference between revisions

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-{{Seed}}
-[[Image:1x9s.png|left|200px]]
-<!--
+==T7 DNA polymerase in complex with a primer/template DNA containing a disordered N-2 aminofluorene on the template, crystallized with dideoxy-CTP as the incoming nucleotide.==
-The line below this paragraph, containing "STRUCTURE_1x9s", creates the "Structure Box" on the page.
+<StructureSection load='1x9s' size='340' side='right'caption='[[1x9s]], [[Resolution|resolution]] 2.70&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[1x9s]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] and [https://en.wikipedia.org/wiki/Escherichia_phage_T7 Escherichia phage T7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1X9S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1X9S FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</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>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=2DT:3-DEOXYTHYMIDINE-5-MONOPHOSPHATE'>2DT</scene>, <scene name='pdbligand=AFG:N-(5-PHOSPHO-2-DEOXYGUANOSIN-8-YL)-2-AMINOFLUORENE'>AFG</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-{{STRUCTURE_1x9s|  PDB=1x9s  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1x9s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1x9s OCA], [https://pdbe.org/1x9s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1x9s RCSB], [https://www.ebi.ac.uk/pdbsum/1x9s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1x9s ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/DPOL_BPT7 DPOL_BPT7] Replicates viral genomic DNA. Non-processive DNA polymerase that achieves processivity by binding to host thioredoxin (TrxA). This interaction increases the rate of dNTP incorporation to yield a processivity of approximately 800 nucleotides (nt) per binding event. Interacts with DNA helicase gp4 to coordinate nucleotide polymerization with unwinding of the DNA. The leading strand is synthesized continuously while synthesis of the lagging strand requires the synthesis of oligoribonucleotides by the primase domain of gp4.<ref>PMID:9218486</ref> <ref>PMID:21606333</ref>
+== 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/x9/1x9s_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=1x9s ConSurf].
+<div style="clear:both"></div>
-===T7 DNA polymerase in complex with a primer/template DNA containing a disordered N-2 aminofluorene on the template, crystallized with dideoxy-CTP as the incoming nucleotide.===
+==See Also==
+*[[DNA polymerase 3D structures|DNA polymerase 3D structures]]
+*[[Thioredoxin 3D structures|Thioredoxin 3D structures]]
-<!--
+== References ==
-The line below this paragraph, {{ABSTRACT_PUBMED_15528277}}, adds the Publication Abstract to the page
+<references/>
-(as it appears on PubMed at http://www.pubmed.gov), where 15528277 is the PubMed ID number.
+__TOC__
--->
+</StructureSection>
-{{ABSTRACT_PUBMED_15528277}}
-==About this Structure==
-X9S is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t7 Enterobacteria phage t7] and [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1X9S OCA].
-==Reference==
-<ref group="xtra">PMID:15528277</ref><references group="xtra"/>
-[[Category: DNA-directed DNA polymerase]]
-[[Category: Enterobacteria phage t7]]
 [[Category: Escherichia coli]]
-[[Category: Dutta, S.]]
+[[Category: Escherichia phage T7]]
-[[Category: Dzantiev, L.]]
+[[Category: Large Structures]]
-[[Category: Ellenberger, T.]]
+[[Category: Dutta S]]
-[[Category: Johnson, D.]]
+[[Category: Dzantiev L]]
-[[Category: Li, Y.]]
+[[Category: Ellenberger T]]
-[[Category: Richardson, C C.]]
+[[Category: Johnson D]]
-[[Category: Romano, L J.]]
+[[Category: Li Y]]
-[[Category: Dna polymerase]]
+[[Category: Richardson CC]]
-[[Category: Mutagenesis]]
+[[Category: Romano LJ]]
-[[Category: N-2-aminofluorene]]
-[[Category: Replication block]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 12:42:23 2009''