1zbf
From Proteopedia
(New page: 200px<br /><applet load="1zbf" size="450" color="white" frame="true" align="right" spinBox="true" caption="1zbf, resolution 1.50Å" /> '''Crystal structure of...) |
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| - | [[Image:1zbf.gif|left|200px]]<br /><applet load="1zbf" size=" | + | [[Image:1zbf.gif|left|200px]]<br /><applet load="1zbf" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1zbf, resolution 1.50Å" /> | caption="1zbf, resolution 1.50Å" /> | ||
'''Crystal structure of B. halodurans RNase H catalytic domain mutant D132N'''<br /> | '''Crystal structure of B. halodurans RNase H catalytic domain mutant D132N'''<br /> | ||
==Overview== | ==Overview== | ||
| - | RNase H belongs to a nucleotidyl-transferase superfamily, which includes | + | 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. |
==About this Structure== | ==About this Structure== | ||
| - | 1ZBF is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_halodurans Bacillus halodurans] with SO4 as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Ribonuclease_H Ribonuclease H], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.4 3.1.26.4] Full crystallographic information is available from [http:// | + | 1ZBF is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_halodurans Bacillus halodurans] with <scene name='pdbligand=SO4:'>SO4</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Ribonuclease_H Ribonuclease H], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.4 3.1.26.4] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZBF OCA]. |
==Reference== | ==Reference== | ||
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[[Category: Ribonuclease H]] | [[Category: Ribonuclease H]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
| - | [[Category: Crouch, R | + | [[Category: Crouch, R J.]] |
| - | [[Category: Gaidamakov, S | + | [[Category: Gaidamakov, S A.]] |
[[Category: Nowotny, M.]] | [[Category: Nowotny, M.]] | ||
[[Category: Yang, W.]] | [[Category: Yang, W.]] | ||
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[[Category: rnase h]] | [[Category: rnase h]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:13:56 2008'' |
Revision as of 14:13, 21 February 2008
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Crystal structure of B. halodurans RNase H catalytic domain mutant D132N
Overview
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.
About this Structure
1ZBF is a Single protein structure of sequence from Bacillus halodurans with as ligand. Active as Ribonuclease H, with EC number 3.1.26.4 Full crystallographic information is available from OCA.
Reference
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:15989951
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