1IBM: Structure Of The Thermus Thermophilus 30s Ribosomal Subunit In Complex With A Messenger Rna Fragment And Cognate Transfer Rna Anticodon Stem-Loop Bound At The A Site

Citation:
Abstract
Crystal structures of the 30S ribosomal subunit in complex with messenger RNA and cognate transfer RNA in the A site, both in the presence and absence of the antibiotic paromomycin, have been solved at between 3.1 and 3.3 angstroms resolution. Cognate transfer RNA (tRNA) binding induces global domain movements of the 30S subunit and changes in the conformation of the universally conserved and essential bases A1492, A1493, and G530 of 16S RNA. These bases interact intimately with the minor groove of the first two base pairs between the codon and anticodon, thus sensing Watson-Crick base-pairing geometry and discriminating against near-cognate tRNA. The third, or "wobble," position of the codon is free to accommodate certain noncanonical base pairs. By partially inducing these structural changes, paromomycin facilitates binding of near-cognate tRNAs.
PDB ID: 1IBMDownload
MMDB ID: 72353
PDB Deposition Date: 2001/3/28
Updated in MMDB: 2011/06
Experimental Method:
x-ray diffraction
Resolution: 3.31  Å
Source Organism:
synthetic construct
Similar Structures:
Biological Unit for 1IBM: 24-meric; determined by author
Molecular Components in 1IBM
Label Count Molecule
Proteins (20 molecules)
1
30S Ribosomal Protein S2
Molecule annotation
1
30S Ribosomal Protein S3
Molecule annotation
1
30S Ribosomal Protein S4(Gene symbol: rpsD)
Molecule annotation
1
30S Ribosomal Protein S5
Molecule annotation
1
30S Ribosomal Protein S6
Molecule annotation
1
30S Ribosomal Protein S7(Gene symbol: TTHA1696)
Molecule annotation
1
30S Ribosomal Protein S8
Molecule annotation
1
30S Ribosomal Protein S9
Molecule annotation
1
30S Ribosomal Protein S10
Molecule annotation
1
30S Ribosomal Protein S11
Molecule annotation
1
30S Ribosomal Protein S12
Molecule annotation
1
30S Ribosomal Protein S13
Molecule annotation
1
30S Ribosomal Protein S14
Molecule annotation
1
30S Ribosomal Protein S15
Molecule annotation
1
30S Ribosomal Protein S16
Molecule annotation
1
30S Ribosomal Protein S17
Molecule annotation
1
30S Ribosomal Protein S18
Molecule annotation
1
30S Ribosomal Protein S19
Molecule annotation
1
30S Ribosomal Protein S20(Gene symbol: rpsT)
Molecule annotation
1
30S Ribosomal Protein THX
Molecule annotation
Nucleotides(4 molecules)
1
16S Ribosomal RNA
Molecule annotation
1
P-site Messenger RNA Fragment
Molecule annotation
1
Anticodon Stem-loop of Phenylalanine Transfer RNA
Molecule annotation
1
A-site Messenger RNA Fragment
Molecule annotation
Chemicals (122 molecules)
1
120
2
2
* Click molecule labels to explore molecular sequence information.

Citing MMDB
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