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124d

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[[Image:124d.jpg|left|200px]]
[[Image:124d.jpg|left|200px]]
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{{Structure
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|PDB= 124d |SIZE=350|CAPTION= <scene name='initialview01'>124d</scene>
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The line below this paragraph, containing "STRUCTURE_124d", creates the "Structure Box" on the page.
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{{STRUCTURE_124d| PDB=124d | SCENE= }}
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=124d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=124d OCA], [http://www.ebi.ac.uk/pdbsum/124d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=124d RCSB]</span>
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'''STRUCTURE OF A DNA:RNA HYBRID DUPLEX: WHY RNASE H DOES NOT CLEAVE PURE RNA'''
'''STRUCTURE OF A DNA:RNA HYBRID DUPLEX: WHY RNASE H DOES NOT CLEAVE PURE RNA'''
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==About this Structure==
==About this Structure==
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124D is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=124D OCA].
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=124D OCA].
==Reference==
==Reference==
Structure of a DNA:RNA hybrid duplex. Why RNase H does not cleave pure RNA., Fedoroff OYu, Salazar M, Reid BR, J Mol Biol. 1993 Oct 5;233(3):509-23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8411159 8411159]
Structure of a DNA:RNA hybrid duplex. Why RNase H does not cleave pure RNA., Fedoroff OYu, Salazar M, Reid BR, J Mol Biol. 1993 Oct 5;233(3):509-23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8411159 8411159]
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[[Category: Protein complex]]
 
[[Category: Fedoroff, O Y.]]
[[Category: Fedoroff, O Y.]]
[[Category: Reid, B R.]]
[[Category: Reid, B R.]]
[[Category: Salazar, M.]]
[[Category: Salazar, M.]]
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[[Category: dna/rna complex]]
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[[Category: Dna/rna complex]]
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[[Category: double helix]]
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[[Category: Double helix]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 09:27:58 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 18:27:19 2008''
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Revision as of 06:27, 2 May 2008

Image:124d.jpg


PDB ID 124d

Drag the structure with the mouse to rotate
124d, 1 NMR models ()
Resources: FirstGlance, OCA, PDBsum, RCSB
Coordinates: save as pdb, mmCIF, xml



STRUCTURE OF A DNA:RNA HYBRID DUPLEX: WHY RNASE H DOES NOT CLEAVE PURE RNA


Overview

The solution structure of the DNA:RNA hybrid duplex d(GTCACATG):r(caugugac) has been determined by means of two-dimensional nuclear Overhauser effect (2D-NOE) spectra, restrained molecular dynamics and full-relaxation matrix stimulation of the 2D-NOE spectra. The DNA:RNA hybrid duplex assumes neither an A-form nor a B-form structure in solution, but an intermediate heteromerous duplex structure. The sugars of the RNA strand have a normal N-type C3'-endo conformation, but the DNA strand sugars have neither N-type nor S-type conformations; instead, they have an unexpected intermediate O4'-endo conformation. The negative x-displacement, as well as the small rise and positive inclination of the base-pairs, resembles A-form morphology but the minor groove width is intermediate between that of A-form and B-form duplexes. Both the DNA and RNA strands show prominent sequence-dependent variations in their helical parameters. Combined analysis of NOE and J-coupling data indicates that the DNA sugars are not in a dynamical two-state equilibrium. The detailed three-dimensional structure of this DNA:RNA hybrid molecule leads to a proposed model for its interaction with RNase H. Several specific structural features of the enzyme complexed with the hybrid duplex appear to explain the mechanism whereby RNase H discriminates between DNA:RNA hybrid duplexes and pure RNA:RNA duplexes.

About this Structure

Full crystallographic information is available from OCA.

Reference

Structure of a DNA:RNA hybrid duplex. Why RNase H does not cleave pure RNA., Fedoroff OYu, Salazar M, Reid BR, J Mol Biol. 1993 Oct 5;233(3):509-23. PMID:8411159 Page seeded by OCA on Fri May 2 09:27:58 2008

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