2jq7
From Proteopedia
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|PDB= 2jq7 |SIZE=350|CAPTION= <scene name='initialview01'>2jq7</scene> | |PDB= 2jq7 |SIZE=350|CAPTION= <scene name='initialview01'>2jq7</scene> | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=A:ADENOSINE-5'-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5'-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=DHA:2-AMINO-ACRYLIC+ACID'>DHA</scene>, <scene name='pdbligand=G:GUANOSINE-5'-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=PYT:2-AMINOPROP-2-ENAMIDE'>PYT</scene>, <scene name='pdbligand=QUA:8-HYDROXY-4-(1-HYDROXYETHYL)QUINOLINE-2-CARBOXYLIC+ACID'>QUA</scene>, <scene name='pdbligand=TSI:(2S,3R)-1-AMINO-2-METHYLBUTANE-2,3-DIOL'>TSI</scene>, <scene name='pdbligand=TZB:(4S)-2-[(1E)-1-AMINOPROP-1-ENYL]-4,5-DIHYDRO-1,3-THIAZOLE-4-CARBOXYLIC+ACID'>TZB</scene>, <scene name='pdbligand=TZO:1,3-THIAZOLE-4-CARBOXYLIC+ACID'>TZO</scene>, <scene name='pdbligand=U:URIDINE-5'-MONOPHOSPHATE'>U</scene>, <scene name='pdbligand=XAA:(1S,2S)-1-AMINO-1-(1,3-THIAZOL-2-YL)PROPAN-2-OL'>XAA</scene>, <scene name='pdbligand=XBB:(3S)-2,3,4,5-TETRAHYDROPYRIDIN-3-AMINE'>XBB</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= rplK ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 Thermotoga maritima]) | |GENE= rplK ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 Thermotoga maritima]) | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[1mms|1MMS]], [[1e9w|1E9W]], [[1oln|1OLN]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2jq7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jq7 OCA], [http://www.ebi.ac.uk/pdbsum/2jq7 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2jq7 RCSB]</span> | ||
}} | }} | ||
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[[Category: Schwalbe, H.]] | [[Category: Schwalbe, H.]] | ||
[[Category: Woehnert, J.]] | [[Category: Woehnert, J.]] | ||
| - | [[Category: QUA]] | ||
| - | [[Category: TZO]] | ||
| - | [[Category: XBB]] | ||
[[Category: antibiotic]] | [[Category: antibiotic]] | ||
[[Category: l11]] | [[Category: l11]] | ||
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[[Category: thiostrepton]] | [[Category: thiostrepton]] | ||
| - | ''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 04:00:39 2008'' |
Revision as of 01:00, 31 March 2008
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| Ligands: | , , , , , , , , , , , | ||||||
| Gene: | rplK (Thermotoga maritima) | ||||||
| Related: | 1MMS, 1E9W, 1OLN
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Model for thiostrepton binding to the ribosomal L11-RNA
Overview
Ribosomal proteins are assumed to stabilize specific RNA structures and promote compact folding of the large rRNA. The conformational dynamics of the protein between the bound and unbound state play an important role in the binding process. We have studied those dynamical changes in detail for the highly conserved complex between the ribosomal protein L11 and the GTPase region of 23S rRNA. The RNA domain is compactly folded into a well defined tertiary structure, which is further stabilized by the association with the C-terminal domain of the L11 protein (L11(ctd)). In addition, the N-terminal domain of L11 (L11(ntd)) is implicated in the binding of the natural thiazole antibiotic thiostrepton, which disrupts the elongation factor function. We have studied the conformation of the ribosomal protein and its dynamics by NMR in the unbound state, the RNA bound state and in the ternary complex with the RNA and thiostrepton. Our data reveal a rearrangement of the L11(ntd), placing it closer to the RNA after binding of thiostrepton, which may prevent binding of elongation factors. We propose a model for the ternary L11-RNA-thiostrepton complex that is additionally based on interaction data and conformational information of the L11 protein. The model is consistent with earlier findings and provides an explanation for the role of L11(ntd) in elongation factor binding.
About this Structure
2JQ7 is a Single protein structure of sequence from Streptomyces azureus and Thermotoga maritima. This structure supersedes the now removed PDB entry 2NYO. Full crystallographic information is available from OCA.
Reference
L11 domain rearrangement upon binding to RNA and thiostrepton studied by NMR spectroscopy., Jonker HR, Ilin S, Grimm SK, Wohnert J, Schwalbe H, Nucleic Acids Res. 2007;35(2):441-54. Epub 2006 Dec 14. PMID:17169991
Page seeded by OCA on Mon Mar 31 04:00:39 2008
Categories: Single protein | Streptomyces azureus | Thermotoga maritima | Grimm, S K. | Ilin, S. | Jonker, H R.A. | Schwalbe, H. | Woehnert, J. | Antibiotic | L11 | Ribosome | Rna | Thiazole | Thiostrepton
