2b63
From Proteopedia
| Line 4: | Line 4: | ||
|PDB= 2b63 |SIZE=350|CAPTION= <scene name='initialview01'>2b63</scene>, resolution 3.800Å | |PDB= 2b63 |SIZE=350|CAPTION= <scene name='initialview01'>2b63</scene>, resolution 3.800Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=5BU:5-BROMO-URIDINE-5'-MONOPHOSPHATE'>5BU</scene>, <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=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=U:URIDINE-5'-MONOPHOSPHATE'>U</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene> |
| - | |ACTIVITY= [http://en.wikipedia.org/wiki/DNA-directed_RNA_polymerase DNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.6 2.7.7.6] | + | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_RNA_polymerase DNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.6 2.7.7.6] </span> |
|GENE= RPB4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae]), RPB7 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae]) | |GENE= RPB4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae]), RPB7 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae]) | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2b63 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b63 OCA], [http://www.ebi.ac.uk/pdbsum/2b63 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2b63 RCSB]</span> | ||
}} | }} | ||
| Line 29: | Line 32: | ||
[[Category: Kettenberger, H.]] | [[Category: Kettenberger, H.]] | ||
[[Category: Theis, M.]] | [[Category: Theis, M.]] | ||
| - | [[Category: MG]] | ||
| - | [[Category: ZN]] | ||
[[Category: aptamer]] | [[Category: aptamer]] | ||
[[Category: inhibitor]] | [[Category: inhibitor]] | ||
| Line 37: | Line 38: | ||
[[Category: rna polymerase ii]] | [[Category: rna polymerase ii]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 02:02:02 2008'' |
Revision as of 23:02, 30 March 2008
| |||||||
| , resolution 3.800Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , , , , | ||||||
| Gene: | RPB4 (Saccharomyces cerevisiae), RPB7 (Saccharomyces cerevisiae) | ||||||
| Activity: | DNA-directed RNA polymerase, with EC number 2.7.7.6 | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Complete RNA Polymerase II-RNA inhibitor complex
Overview
The noncoding RNA B2 and the RNA aptamer FC bind RNA polymerase (Pol) II and inhibit messenger RNA transcription initiation, but not elongation. We report the crystal structure of FC(*), the central part of FC RNA, bound to Pol II. FC(*) RNA forms a double stem-loop structure in the Pol II active center cleft. B2 RNA may bind similarly, as it competes with FC(*) RNA for Pol II interaction. Both RNA inhibitors apparently prevent the downstream DNA duplex and the template single strand from entering the cleft after DNA melting and thus interfere with open-complex formation. Elongation is not inhibited, as nucleic acids prebound in the cleft would exclude the RNA inhibitors. The structure also indicates that A-form RNA could interact with Pol II similarly to a B-form DNA promoter, as suggested for the bacterial transcription inhibitor 6S RNA.
About this Structure
2B63 is a Protein complex structure of sequences from Saccharomyces cerevisiae. Full crystallographic information is available from OCA.
Reference
Structure of an RNA polymerase II-RNA inhibitor complex elucidates transcription regulation by noncoding RNAs., Kettenberger H, Eisenfuhr A, Brueckner F, Theis M, Famulok M, Cramer P, Nat Struct Mol Biol. 2006 Jan;13(1):44-8. Epub 2005 Dec 11. PMID:16341226
Page seeded by OCA on Mon Mar 31 02:02:02 2008
