1zbf: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older edit
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,332,438 edits
No edit summary
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,332,438 edits
No edit summary
 
(12 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[Image:1zbf.gif|left|200px]]


<!--
==Crystal structure of B. halodurans RNase H catalytic domain mutant D132N==
The line below this paragraph, containing "STRUCTURE_1zbf", creates the "Structure Box" on the page.
<StructureSection load='1zbf' size='340' side='right'caption='[[1zbf]], [[Resolution|resolution]] 1.50&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'>[[1zbf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Alkalihalobacillus_halodurans_C-125 Alkalihalobacillus halodurans C-125]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZBF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ZBF 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]] 1.5&#8491;</td></tr>
-->
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
{{STRUCTURE_1zbf|  PDB=1zbf |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1zbf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zbf OCA], [https://pdbe.org/1zbf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1zbf RCSB], [https://www.ebi.ac.uk/pdbsum/1zbf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1zbf ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/RNH1_HALH5 RNH1_HALH5] Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.<ref>PMID:15989951</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/zb/1zbf_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=1zbf ConSurf].
<div style="clear:both"></div>


'''Crystal structure of B. halodurans RNase H catalytic domain mutant D132N'''
==See Also==
 
*[[Ribonuclease 3D structures|Ribonuclease 3D structures]]
 
== References ==
==Overview==
<references/>
RNase H belongs to a nucleotidyl-transferase superfamily, which includes transposase, retroviral integrase, Holliday junction resolvase, and RISC nuclease Argonaute. We report the crystal structures of RNase H complexed with an RNA/DNA hybrid and a mechanism for substrate recognition and two-metal-ion-dependent catalysis. RNase H specifically recognizes the A form RNA strand and the B form DNA strand. Structure comparisons lead us to predict the catalytic residues of Argonaute and conclude that two-metal-ion catalysis is a general feature of the superfamily. In nucleases, the two metal ions are asymmetrically coordinated and have distinct roles in activating the nucleophile and stabilizing the transition state. In transposases, they are symmetrically coordinated and exchange roles to alternately activate a water and a 3'-OH for successive strand cleavage and transfer by a ping-pong mechanism.
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Alkalihalobacillus halodurans C-125]]
1ZBF is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_halodurans Bacillus halodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZBF OCA].
[[Category: Large Structures]]
 
[[Category: Crouch RJ]]
==Reference==
[[Category: Gaidamakov SA]]
Crystal structures of RNase H bound to an RNA/DNA hybrid: substrate specificity and metal-dependent catalysis., Nowotny M, Gaidamakov SA, Crouch RJ, Yang W, Cell. 2005 Jul 1;121(7):1005-16. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15989951 15989951]
[[Category: Nowotny M]]
[[Category: Bacillus halodurans]]
[[Category: Yang W]]
[[Category: Ribonuclease H]]
[[Category: Single protein]]
[[Category: Crouch, R J.]]
[[Category: Gaidamakov, S A.]]
[[Category: Nowotny, M.]]
[[Category: Yang, W.]]
[[Category: Dde motif]]
[[Category: Rna/dna hybrid]]
[[Category: Rnase h]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 17:25:17 2008''

Latest revision as of 09:03, 14 February 2024

Crystal structure of B. halodurans RNase H catalytic domain mutant D132N

1zbf, resolution 1.50Å

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "https://proteopedia.org/index.php?title=1zbf&oldid=4057144"