1w0h

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[[Image:1w0h.gif|left|200px]]<br /><applet load="1w0h" size="350" color="white" frame="true" align="right" spinBox="true"
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[[Image:1w0h.gif|left|200px]]
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caption="1w0h, resolution 1.59&Aring;" />
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'''CRYSTALLOGRAPHIC STRUCTURE OF THE NUCLEASE DOMAIN OF 3'HEXO, A DEDDH FAMILY MEMBER, BOUND TO RAMP'''<br />
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{{Structure
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|PDB= 1w0h |SIZE=350|CAPTION= <scene name='initialview01'>1w0h</scene>, resolution 1.59&Aring;
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|SITE= <scene name='pdbsite=MGA:Amp+Binding+Site+For+Chain+A'>MGA</scene>
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|LIGAND= <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene> and <scene name='pdbligand=AMP:ADENOSINE MONOPHOSPHATE'>AMP</scene>
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|ACTIVITY=
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|GENE=
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}}
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'''CRYSTALLOGRAPHIC STRUCTURE OF THE NUCLEASE DOMAIN OF 3'HEXO, A DEDDH FAMILY MEMBER, BOUND TO RAMP'''
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==Overview==
==Overview==
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==About this Structure==
==About this Structure==
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1W0H is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] with <scene name='pdbligand=MG:'>MG</scene> and <scene name='pdbligand=AMP:'>AMP</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Known structural/functional Site: <scene name='pdbsite=MGA:Amp+Binding+Site+For+Chain+A'>MGA</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W0H OCA].
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1W0H is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W0H OCA].
==Reference==
==Reference==
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Crystallographic structure of the nuclease domain of 3'hExo, a DEDDh family member, bound to rAMP., Cheng Y, Patel DJ, J Mol Biol. 2004 Oct 15;343(2):305-12. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15451662 15451662]
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Crystallographic structure of the nuclease domain of 3'hExo, a DEDDh family member, bound to rAMP., Cheng Y, Patel DJ, J Mol Biol. 2004 Oct 15;343(2):305-12. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15451662 15451662]
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
[[Category: Single protein]]
[[Category: Single protein]]
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[[Category: nuclease domain]]
[[Category: nuclease domain]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 15:39:12 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 14:50:29 2008''

Revision as of 12:50, 20 March 2008

Image:1w0h.gif


PDB ID 1w0h

Drag the structure with the mouse to rotate
, resolution 1.59Å
Sites:
Ligands: and
Coordinates: save as pdb, mmCIF, xml



CRYSTALLOGRAPHIC STRUCTURE OF THE NUCLEASE DOMAIN OF 3'HEXO, A DEDDH FAMILY MEMBER, BOUND TO RAMP


Overview

A human 3'-5'-exoribonuclease (3'hExo) has recently been identified and shown to be responsible for histone mRNA degradation. Functionally, 3'hExo and a stem-loop binding protein (SLBP) target opposite faces of a unique highly conserved stem-loop RNA scaffold towards the 3' end of histone mRNA, which is composed of a 6 bp stem and a 4 nt loop, followed by an ACCCA sequence. Its Caenorhabditis elegans homologue, ERI-1, has been shown to degrade small interfering RNA in vitro and to function as a negative regulator of RNA interference in neuronal cells. We have determined the structure of the nuclease domain (Nuc) of 3'hExo complexed with rAMP in the presence of Mg2+ at 1.6 A resolution. The Nuc domain adopts an alpha/beta globular fold, with four acidic residues coordinating a binuclear metal cluster within the active site, whose topology is related to DEDDh exonuclease family members, despite a very low level of primary sequence identity. The two magnesium cations in the Nuc active site are coordinated to D134, E136, D234 and D298, and together with H293, which can potentially act as a general base, provide a platform for hydrolytic cleavage of bound RNA in the 3' --> 5' direction. The bound rAMP is positioned within a deep active-site pocket, with its purine ring close-packed with the hydrophobic F185 and L189 side-chains and its sugar 2'-OH and 3'-OH groups hydrogen bonded to backbone atoms of Nuc. There are striking similarities between the active sites of Nuc and epsilon186, an Escherichia coli DNA polymerase III proofreading domain, providing a common hydrolytic cleavage mechanism for RNA degradation and DNA editing, respectively.

About this Structure

1W0H is a Single protein structure of sequence from Homo sapiens. Full crystallographic information is available from OCA.

Reference

Crystallographic structure of the nuclease domain of 3'hExo, a DEDDh family member, bound to rAMP., Cheng Y, Patel DJ, J Mol Biol. 2004 Oct 15;343(2):305-12. PMID:15451662

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