1rht

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Line 1: Line 1:
[[Image:1rht.gif|left|200px]]
[[Image:1rht.gif|left|200px]]
-
{{Structure
+
<!--
-
|PDB= 1rht |SIZE=350|CAPTION= <scene name='initialview01'>1rht</scene>
+
The line below this paragraph, containing "STRUCTURE_1rht", creates the "Structure Box" on the page.
-
|SITE=
+
You may change the PDB parameter (which sets the PDB file loaded into the applet)
-
|LIGAND= <scene name='pdbligand=A:ADENOSINE-5&#39;-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5&#39;-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=G:GUANOSINE-5&#39;-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=U:URIDINE-5&#39;-MONOPHOSPHATE'>U</scene>
+
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-
|ACTIVITY=
+
or leave the SCENE parameter empty for the default display.
-
|GENE=
+
-->
-
|DOMAIN=
+
{{STRUCTURE_1rht| PDB=1rht | SCENE= }}
-
|RELATEDENTRY=
+
-
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1rht FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rht OCA], [http://www.ebi.ac.uk/pdbsum/1rht PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1rht RCSB]</span>
+
-
}}
+
'''24-MER RNA HAIRPIN COAT PROTEIN BINDING SITE FOR BACTERIOPHAGE R17 (NMR, MINIMIZED AVERAGE STRUCTURE)'''
'''24-MER RNA HAIRPIN COAT PROTEIN BINDING SITE FOR BACTERIOPHAGE R17 (NMR, MINIMIZED AVERAGE STRUCTURE)'''
Line 19: Line 16:
==About this Structure==
==About this Structure==
-
1RHT 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=1RHT OCA].
+
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RHT OCA].
==Reference==
==Reference==
Proton NMR and structural features of a 24-nucleotide RNA hairpin., Borer PN, Lin Y, Wang S, Roggenbuck MW, Gott JM, Uhlenbeck OC, Pelczer I, Biochemistry. 1995 May 16;34(19):6488-503. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/7756280 7756280]
Proton NMR and structural features of a 24-nucleotide RNA hairpin., Borer PN, Lin Y, Wang S, Roggenbuck MW, Gott JM, Uhlenbeck OC, Pelczer I, Biochemistry. 1995 May 16;34(19):6488-503. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/7756280 7756280]
-
[[Category: Protein complex]]
 
[[Category: Borer, P N.]]
[[Category: Borer, P N.]]
[[Category: Gott, J M.]]
[[Category: Gott, J M.]]
Line 31: Line 27:
[[Category: Uhlenbeck, O C.]]
[[Category: Uhlenbeck, O C.]]
[[Category: Wang, S.]]
[[Category: Wang, S.]]
-
[[Category: bacteriophage r17]]
+
[[Category: Bacteriophage r17]]
-
[[Category: hairpin]]
+
[[Category: Hairpin]]
-
[[Category: nmr]]
+
[[Category: Nmr]]
-
[[Category: rna]]
+
[[Category: Rna]]
-
 
+
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 07:30:55 2008''
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:28:23 2008''
+

Revision as of 04:30, 3 May 2008

Image:1rht.gif

Template:STRUCTURE 1rht

24-MER RNA HAIRPIN COAT PROTEIN BINDING SITE FOR BACTERIOPHAGE R17 (NMR, MINIMIZED AVERAGE STRUCTURE)


Overview

The three-dimensional conformation of a 24-nucleotide variant of the RNA binding sequence for the coat protein of bacteriophage R17 has been analyzed using NMR, molecular dynamics, and energy minimization. The imino proton spectrum is consistent with base pairing requirements for coat protein binding known from biochemical studies. All 185 of the nonexchangeable protons were assigned using a variety of homonuclear 2D and 3D NMR methods. Measurements of nuclear Overhauser enhancements and two-quantum correlations were made at 500 MHz. New procedures were developed to characterize as many resonances as possible, including deconvolution and path analysis methods. An average of 21 distance constraints per residue were used in molecular dynamics calculations to obtain preliminary folded structures for residues 3-21. The unpaired A8 residue is stacked in the stem, and the entire region from G7 to C15 in the upper stem and loop appears to be flexible. Several of these residues have a large fraction of S-puckered ribose rings, rather than the N-forms characteristic of RNA duplexes. There is considerable variation in the low-energy loop conformations that satisfy the distance constraints at this preliminary level of refinement. The Shine-Dalgarno ribosome binding site is exposed, and only two apparently weak base pairs would have to break for the 16S ribosomal RNA to bind and the ribosome to initiate translation of the replicase gene. Although the loop form must be regarded as tentative, the known interaction sites with the coat protein are easily accessible from the major groove side of the loop.

About this Structure

Full crystallographic information is available from OCA.

Reference

Proton NMR and structural features of a 24-nucleotide RNA hairpin., Borer PN, Lin Y, Wang S, Roggenbuck MW, Gott JM, Uhlenbeck OC, Pelczer I, Biochemistry. 1995 May 16;34(19):6488-503. PMID:7756280 Page seeded by OCA on Sat May 3 07:30:55 2008

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1rht"
Personal tools