1ih7: Difference between revisions

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-[[Image:1ih7.jpg|left|200px]]
- {{Structure
+==High-Resolution Structure of Apo RB69 DNA Polymerase==
-|PDB= 1ih7 |SIZE=350|CAPTION= <scene name='initialview01'>1ih7</scene>, resolution 2.21&Aring;
+<StructureSection load='1ih7' size='340' side='right'caption='[[1ih7]], [[Resolution|resolution]] 2.21&Aring;' scene=''>
-|SITE=
+== Structural highlights ==
-|LIGAND= <scene name='pdbligand=K:POTASSIUM+ION'>K</scene> and <scene name='pdbligand=GMP:GUANOSINE'>GMP</scene>
+<table><tr><td colspan='2'>[[1ih7]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_phage_RB69 Escherichia phage RB69]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IH7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1IH7 FirstGlance]. <br>
-|ACTIVITY= [http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7]
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.21&#8491;</td></tr>
-|GENE= gp43 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10692 Enterobacteria phage RB18])
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GMP:GUANOSINE'>GMP</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</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=1ih7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ih7 OCA], [https://pdbe.org/1ih7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ih7 RCSB], [https://www.ebi.ac.uk/pdbsum/1ih7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ih7 ProSAT]</span></td></tr>
+</table>
-'''High-Resolution Structure of Apo RB69 DNA Polymerase'''
+== Function ==
+[https://www.uniprot.org/uniprot/DPOL_BPR69 DPOL_BPR69] This polymerase possesses two enzymatic activities: DNA synthesis (polymerase) and an exonucleolytic activity that degrades single stranded DNA in the 3'- to 5'-direction.
+== Evolutionary Conservation ==
-==Overview==
+[[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/ih/1ih7_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=1ih7 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
 We describe the 2.6 A resolution crystal structure of RB69 DNA polymerase with primer-template DNA and dTTP, capturing the step just before primer extension. This ternary complex structure in the human DNA polymerase alpha family shows a 60 degrees rotation of the fingers domain relative to the apo-protein structure, similar to the fingers movement in pol I family polymerases. Minor groove interactions near the primer 3' terminus suggest a common fidelity mechanism for pol I and pol alpha family polymerases. The duplex product DNA orientation differs by 40 degrees between the polymerizing mode and editing mode structures. The role of the thumb in this DNA motion provides a model for editing in the pol alpha family.
-==About this Structure==
+Structure of the replicating complex of a pol alpha family DNA polymerase.,Franklin MC, Wang J, Steitz TA Cell. 2001 Jun 1;105(5):657-67. PMID:11389835<ref>PMID:11389835</ref>
-IH7 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_rb18 Enterobacteria phage rb18]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IH7 OCA].
-==Reference==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-Structure of the replicating complex of a pol alpha family DNA polymerase., Franklin MC, Wang J, Steitz TA, Cell. 2001 Jun 1;105(5):657-67. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11389835 11389835]
+</div>
-[[Category: DNA-directed DNA polymerase]]
+<div class="pdbe-citations 1ih7" style="background-color:#fffaf0;"></div>
-[[Category: Enterobacteria phage rb18]]
-[[Category: Single protein]]
-[[Category: Franklin, M C.]]
-[[Category: Steitz, T A.]]
-[[Category: Wang, J.]]
-[[Category: GMP]]
-[[Category: K]]
-[[Category: dna polymerase]]
-[[Category: finger]]
-[[Category: palm]]
-[[Category: thumb]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 11:50:18 2008''
+==See Also==
+*[[DNA polymerase 3D structures|DNA polymerase 3D structures]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Escherichia phage RB69]]
+[[Category: Large Structures]]
+[[Category: Franklin MC]]
+[[Category: Steitz TA]]
+[[Category: Wang J]]