3h5x: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older edit
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,330,058 edits
No edit summary
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,330,058 edits
No edit summary
 
(10 intermediate revisions by the same user not shown)
Line 1: Line 1:
{{Seed}}
[[Image:3h5x.png|left|200px]]


<!--
==Crystal Structure of 2'-amino-2'-deoxy-cytidine-5'-triphosphate bound to Norovirus GII RNA polymerase==
The line below this paragraph, containing "STRUCTURE_3h5x", creates the "Structure Box" on the page.
<StructureSection load='3h5x' size='340' side='right'caption='[[3h5x]], [[Resolution|resolution]] 1.77&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'>[[3h5x]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Norwalk_virus Norwalk virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3H5X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3H5X 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]] 1.77&#8491;</td></tr>
-->
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CSG:2-AMINO-2-DEOXYCYTIDINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)'>CSG</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
{{STRUCTURE_3h5x|  PDB=3h5x  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3h5x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3h5x OCA], [https://pdbe.org/3h5x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3h5x RCSB], [https://www.ebi.ac.uk/pdbsum/3h5x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3h5x ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q70ET3_9CALI Q70ET3_9CALI]
== 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/h5/3h5x_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=3h5x ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Crystal structures of a genogroup II.4 human norovirus polymerase bound to an RNA primer-template duplex and the substrate analogue 2'-amino-2'-deoxycytidine-5'-triphosphate have been determined to 1.8 A resolution. The alteration of the substrate-binding site that is required to accommodate the 2'-amino group leads to a rearrangement of the polymerase active site and a disruption of the coordination shells of the active-site metal ions. The mode of binding seen for 2'-amino-2'-deoxycytidine-5'-triphosphate suggests a novel molecular mechanism of inhibition that may be exploited for the design of inhibitors targeting viral RNA polymerases.


===Crystal Structure of 2'-amino-2'-deoxy-cytidine-5'-triphosphate bound to Norovirus GII RNA polymerase===
Binding of 2'-amino-2'-deoxycytidine-5'-triphosphate to norovirus polymerase induces rearrangement of the active site.,Zamyatkin DF, Parra F, Machin A, Grochulski P, Ng KK J Mol Biol. 2009 Jul 3;390(1):10-6. Epub 2009 May 5. PMID:19426741<ref>PMID:19426741</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3h5x" style="background-color:#fffaf0;"></div>


<!--
==See Also==
The line below this paragraph, {{ABSTRACT_PUBMED_19426741}}, adds the Publication Abstract to the page
*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
(as it appears on PubMed at http://www.pubmed.gov), where 19426741 is the PubMed ID number.
== References ==
-->
<references/>
{{ABSTRACT_PUBMED_19426741}}
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Large Structures]]
3H5X is a 3 chains structure of sequences from [http://en.wikipedia.org/wiki/Norwalk_virus Norwalk virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3H5X OCA].
 
==Reference==
<ref group="xtra">PMID:19426741</ref><references group="xtra"/>
[[Category: Norwalk virus]]
[[Category: Norwalk virus]]
[[Category: RNA-directed RNA polymerase]]
[[Category: Grochulski P]]
[[Category: Grochulski, P.]]
[[Category: Machin A]]
[[Category: Machin, A.]]
[[Category: Ng KKS]]
[[Category: Ng, K K.S.]]
[[Category: Parra F]]
[[Category: Parra, F.]]
[[Category: Zamyatkin DF]]
[[Category: Zamyatkin, D F.]]
[[Category: Calicivirus]]
[[Category: Hydrolase]]
[[Category: Non-natural nucleoside triphosphate analog]]
[[Category: Nucleotide-binding]]
[[Category: Nucleotidyltransferase]]
[[Category: Polymerase-rna complex]]
[[Category: Protease]]
[[Category: Rna replication]]
[[Category: Rna-directed rna polymerase]]
[[Category: Thiol protease]]
[[Category: Transferase]]
[[Category: Transferase/rna complex]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul  1 09:17:28 2009''
Retrieved from "https://proteopedia.org/3h5x"