2tob
From Proteopedia
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|PDB= 2tob |SIZE=350|CAPTION= <scene name='initialview01'>2tob</scene> | |PDB= 2tob |SIZE=350|CAPTION= <scene name='initialview01'>2tob</scene> | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand=TOA:3-DEOXY-3-AMINO+GLUCOSE'>TOA</scene>, <scene name='pdbligand=TOC:2,3,6-TRIDEOXY-2,6-DIAMINO+GLUCOSE'>TOC</scene> | + | |LIGAND= <scene name='pdbligand=2TB:1,3-DIAMINO-4,5,6-TRIHYDROXY-CYCLOHEXANE'>2TB</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=TOA:3-DEOXY-3-AMINO+GLUCOSE'>TOA</scene>, <scene name='pdbligand=TOC:2,3,6-TRIDEOXY-2,6-DIAMINO+GLUCOSE'>TOC</scene>, <scene name='pdbligand=U:URIDINE-5'-MONOPHOSPHATE'>U</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2tob FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2tob OCA], [http://www.ebi.ac.uk/pdbsum/2tob PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2tob RCSB]</span> | ||
}} | }} | ||
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[[Category: Jiang, L.]] | [[Category: Jiang, L.]] | ||
[[Category: Patel, D J.]] | [[Category: Patel, D J.]] | ||
| - | [[Category: 2TB]] | ||
| - | [[Category: TOA]] | ||
| - | [[Category: TOC]] | ||
[[Category: aminoglycoside-rna recognition]] | [[Category: aminoglycoside-rna recognition]] | ||
[[Category: tobramycin]] | [[Category: tobramycin]] | ||
| - | ''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 05:03:54 2008'' |
Revision as of 02:03, 31 March 2008
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| Ligands: | , , , , , , | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
SOLUTION STRUCTURE OF THE TOBRAMYCIN-RNA APTAMER COMPLEX, NMR, 13 STRUCTURES
Overview
We have solved the solution structure of the aminoglycoside antibiotic tobramycin complexed with a stem-loop RNA aptamer. The 14 base loop of the RNA aptamer 'zippers up' alongside the attached stem through alignment of four mismatches and one Watson-Crick pair on complex formation. The tobramycin inserts into the deep groove centered about the mismatch pairs and is partially encapsulated between its floor and a looped out guanine base that flaps over the bound antibiotic. Several potential intermolecular hydrogen bonds between the charged NH3 groups of tobramycin and acceptor atoms on base pair edges and backbone phosphates anchor the aminoglycoside antibiotic within its sequence/structure specific RNA binding pocket.
About this Structure
2TOB is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Solution structure of the tobramycin-RNA aptamer complex., Jiang L, Patel DJ, Nat Struct Biol. 1998 Sep;5(9):769-74. PMID:9731769
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