1rfr
From Proteopedia
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|PDB= 1rfr |SIZE=350|CAPTION= <scene name='initialview01'>1rfr</scene> | |PDB= 1rfr |SIZE=350|CAPTION= <scene name='initialview01'>1rfr</scene> | ||
|SITE= | |SITE= | ||
| - | |LIGAND= | + | |LIGAND= <scene name='pdbligand=A:ADENOSINE-5'-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5'-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=G:GUANOSINE-5'-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=U:URIDINE-5'-MONOPHOSPHATE'>U</scene> |
|ACTIVITY= | |ACTIVITY= | ||
| - | |GENE= 5'-nontranslated region ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id= | + | |GENE= 5'-nontranslated region ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=12072 Human coxsackievirus B3]) |
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1rfr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rfr OCA], [http://www.ebi.ac.uk/pdbsum/1rfr PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1rfr RCSB]</span> | ||
}} | }} | ||
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==About this Structure== | ==About this Structure== | ||
| - | 1RFR is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ | + | 1RFR is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Human_coxsackievirus_b3 Human coxsackievirus b3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RFR OCA]. |
==Reference== | ==Reference== | ||
The structure of the stemloop D subdomain of coxsackievirus B3 cloverleaf RNA and its interaction with the proteinase 3C., Ohlenschlager O, Wohnert J, Bucci E, Seitz S, Hafner S, Ramachandran R, Zell R, Gorlach M, Structure. 2004 Feb;12(2):237-48. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/14962384 14962384] | The structure of the stemloop D subdomain of coxsackievirus B3 cloverleaf RNA and its interaction with the proteinase 3C., Ohlenschlager O, Wohnert J, Bucci E, Seitz S, Hafner S, Ramachandran R, Zell R, Gorlach M, Structure. 2004 Feb;12(2):237-48. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/14962384 14962384] | ||
| - | [[Category: Human coxsackievirus | + | [[Category: Human coxsackievirus b3]] |
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Bucci, E.]] | [[Category: Bucci, E.]] | ||
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[[Category: loop with conformation similar to stable uncg-tetraloops and u:g closing base pair]] | [[Category: loop with conformation similar to stable uncg-tetraloops and u:g closing base pair]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:27:32 2008'' |
Revision as of 20:27, 30 March 2008
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| Ligands: | , , , | ||||||
| Gene: | 5'-nontranslated region (Human coxsackievirus B3) | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
NMR structure of the 30mer stemloop-D of coxsackieviral RNA
Overview
Stemloop D (SLD) of the 5' cloverleaf RNA is the cognate ligand of the coxsackievirus B3 (CVB3) 3C proteinase (3Cpro). Both are indispensable components of the viral replication initiation complex. SLD is a structurally autonomous subunit of the 5' cloverleaf. The SLD structure was solved by NMR spectroscopy to an rms deviation of 0.66 A (all heavy atoms). SLD contains a novel triple pyrimidine mismatch motif with a central Watson-Crick type C:U pair. SLD is capped by an apical uCACGg tetraloop adopting a structure highly similar to stable cUNCGg tetraloops. Binding of CVB3 3Cpro induces changes in NMR spectra for nucleotides adjacent to the triple pyrimidine mismatch and of the tetraloop implying them as sites of specific SLD:3Cpro interaction. The binding of 3Cpro to SLD requires the integrity of those structural elements, strongly suggesting that 3Cpro recognizes a structural motif instead of a specific sequence.
About this Structure
1RFR is a Protein complex structure of sequences from Human coxsackievirus b3. Full crystallographic information is available from OCA.
Reference
The structure of the stemloop D subdomain of coxsackievirus B3 cloverleaf RNA and its interaction with the proteinase 3C., Ohlenschlager O, Wohnert J, Bucci E, Seitz S, Hafner S, Ramachandran R, Zell R, Gorlach M, Structure. 2004 Feb;12(2):237-48. PMID:14962384
Page seeded by OCA on Sun Mar 30 23:27:32 2008
Categories: Human coxsackievirus b3 | Protein complex | Bucci, E. | Gorlach, M. | Hafner, S. | Ohlenschlager, O. | Ramachandran, R. | Seitz, S. | Wohnert, J. | Zell, R. | A-form helix stem | Base-paired u:u-c:u-u:u mismatch | Loop with conformation similar to stable uncg-tetraloops and u:g closing base pair
