1w4a: Difference between revisions

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-{{Seed}}
-[[Image:1w4a.png|left|200px]]
-<!--
+==P4 protein from PHI12 in complex with AMPcPP and Mn==
-The line below this paragraph, containing "STRUCTURE_1w4a", creates the "Structure Box" on the page.
+<StructureSection load='1w4a' size='340' side='right'caption='[[1w4a]], [[Resolution|resolution]] 2.40&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'>[[1w4a]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_phage_phi12 Pseudomonas phage phi12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W4A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1W4A 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]] 2.4&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=APC:DIPHOSPHOMETHYLPHOSPHONIC+ACID+ADENOSYL+ESTER'>APC</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
-{{STRUCTURE_1w4a|  PDB=1w4a  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1w4a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w4a OCA], [https://pdbe.org/1w4a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1w4a RCSB], [https://www.ebi.ac.uk/pdbsum/1w4a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1w4a ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q94M05_9VIRU Q94M05_9VIRU]
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Many viruses package their genome into preformed capsids using packaging motors powered by the hydrolysis of ATP. The hexameric ATPase P4 of dsRNA bacteriophage phi12, located at the vertices of the icosahedral capsid, is such a packaging motor. We have captured crystallographic structures of P4 for all the key points along the catalytic pathway, including apo, substrate analog bound, and product bound. Substrate and product binding have been observed as both binary complexes and ternary complexes with divalent cations. These structures reveal large movements of the putative RNA binding loop, which are coupled with nucleotide binding and hydrolysis, indicating how ATP hydrolysis drives RNA translocation through cooperative conformational changes. Two distinct conformations of bound nucleotide triphosphate suggest how hydrolysis is activated by RNA binding. This provides a model for chemomechanical coupling for a prototype of the large family of hexameric helicases and oligonucleotide translocating enzymes.
-===P4 PROTEIN FROM PHI12 IN COMPLEX WITH AMPCPP AND MN===
+Atomic snapshots of an RNA packaging motor reveal conformational changes linking ATP hydrolysis to RNA translocation.,Mancini EJ, Kainov DE, Grimes JM, Tuma R, Bamford DH, Stuart DI Cell. 2004 Sep 17;118(6):743-55. PMID:15369673<ref>PMID:15369673</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<!--
+</div>
-The line below this paragraph, {{ABSTRACT_PUBMED_15369673}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 1w4a" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 15369673 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_15369673}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-W4A is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Pseudomonas_phage_phi12 Pseudomonas phage phi12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W4A OCA].
-==Reference==
-Atomic snapshots of an RNA packaging motor reveal conformational changes linking ATP hydrolysis to RNA translocation., Mancini EJ, Kainov DE, Grimes JM, Tuma R, Bamford DH, Stuart DI, Cell. 2004 Sep 17;118(6):743-55. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15369673 15369673]
 [[Category: Pseudomonas phage phi12]]
-[[Category: Single protein]]
+[[Category: Bamford DH]]
-[[Category: Bamford, D H.]]
+[[Category: Grimes JM]]
-[[Category: Grimes, J M.]]
+[[Category: Kainov DE]]
-[[Category: Kainov, D E.]]
+[[Category: Mancini EJ]]
-[[Category: Mancini, E J.]]
+[[Category: Stuart DI]]
-[[Category: Stuart, D I.]]
+[[Category: Tuma R]]
-[[Category: Tuma, R.]]
-[[Category: Hexameric helicase]]
-[[Category: Hydrolase]]
-[[Category: Molecular motor]]
-[[Category: Non-hydrolysable atp analogue]]
-[[Category: Packaging atpase]]
-[[Category: Virus dsrna]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 15:16:46 2008''