Database of articles cited by EMDB/PDB/SASBDB data

Keywords
Structure methods	All X-ray diffraction NMR electron microscopy small angle scattering neutron diffraction fiber diffraction powder diffraction infrared spectroscopy EPR fluorescence transfer theoretical model Hybrid
Author
Journal
IF	>30 >20 >10 >5 all

Title	A cryo-electron microscopic study of ribosome-bound termination factor RF2.
Journal, issue, pages	Nature, Vol. 421, Issue 6918, Page 87-90, Year 2003
Publish date	Jan 2, 2003
Authors	Urmila B S Rawat / Andrey V Zavialov / Jayati Sengupta / Mikel Valle / Robert A Grassucci / Jamie Linde / Bente Vestergaard / Måns Ehrenberg / Joachim Frank /
PubMed Abstract	Protein synthesis takes place on the ribosome, where genetic information carried by messenger RNA is translated into a sequence of amino acids. This process is terminated when a stop codon moves into ...Protein synthesis takes place on the ribosome, where genetic information carried by messenger RNA is translated into a sequence of amino acids. This process is terminated when a stop codon moves into the ribosomal decoding centre (DC) and is recognized by a class-1 release factor (RF). RFs have a conserved GGQ amino-acid motif, which is crucial for peptide release and is believed to interact directly with the peptidyl-transferase centre (PTC) of the 50S ribosomal subunit. Another conserved motif of RFs (SPF in RF2) has been proposed to interact directly with stop codons in the DC of the 30S subunit. The distance between the DC and PTC is approximately 73 A. However, in the X-ray structure of RF2, SPF and GGQ are only 23 A apart, indicating that they cannot be at DC and PTC simultaneously. Here we show that RF2 is in an open conformation when bound to the ribosome, allowing GGQ to reach the PTC while still allowing SPF-stop-codon interaction. The results indicate new interpretations of accuracy in termination, and have implications for how the presence of a stop codon in the DC is signalled to PTC.
External links	Nature / PubMed:12511960
Methods	EM (single particle)
Resolution	10.9 - 12.9 Å
Structure data	1006 1mi6 1mvr EMDB-1006: A cryo-electron microscopic study of ribosome-bound termination factor RF2. PDB-1mi6: Docking of the modified RF2 X-ray structure into the Low Resolution Cryo-EM map of RF2 E.coli 70S Ribosome PDB-1mvr: Decoding Center & Peptidyl transferase center from the X-ray structure of the Thermus thermophilus 70S ribosome, aligned to the low resolution Cryo-EM map of E.coli 70S Ribosome Method: EM (single particle) / Resolution: 11.3 Å 1007 1mi6 1mvr EMDB-1007: A cryo-electron microscopic study of ribosome-bound termination factor RF2. PDB-1mi6: Docking of the modified RF2 X-ray structure into the Low Resolution Cryo-EM map of RF2 E.coli 70S Ribosome PDB-1mvr: Decoding Center & Peptidyl transferase center from the X-ray structure of the Thermus thermophilus 70S ribosome, aligned to the low resolution Cryo-EM map of E.coli 70S Ribosome Method: EM (single particle) / Resolution: 12.9 Å 1008 1mi6 1mvr EMDB-1008: A cryo-electron microscopic study of ribosome-bound termination factor RF2. PDB-1mi6: Docking of the modified RF2 X-ray structure into the Low Resolution Cryo-EM map of RF2 E.coli 70S Ribosome PDB-1mvr: Decoding Center & Peptidyl transferase center from the X-ray structure of the Thermus thermophilus 70S ribosome, aligned to the low resolution Cryo-EM map of E.coli 70S Ribosome Method: EM (single particle) / Resolution: 10.9 Å 1009 1mi6 1mvr EMDB-1009: A cryo-electron microscopic study of ribosome-bound termination factor RF2. PDB-1mi6: Docking of the modified RF2 X-ray structure into the Low Resolution Cryo-EM map of RF2 E.coli 70S Ribosome PDB-1mvr: Decoding Center & Peptidyl transferase center from the X-ray structure of the Thermus thermophilus 70S ribosome, aligned to the low resolution Cryo-EM map of E.coli 70S Ribosome Method: EM (single particle) / Resolution: 10.9 Å 1010 1mi6 1mvr EMDB-1010: A cryo-electron microscopic study of ribosome-bound termination factor RF2. PDB-1mi6: Docking of the modified RF2 X-ray structure into the Low Resolution Cryo-EM map of RF2 E.coli 70S Ribosome PDB-1mvr: Decoding Center & Peptidyl transferase center from the X-ray structure of the Thermus thermophilus 70S ribosome, aligned to the low resolution Cryo-EM map of E.coli 70S Ribosome Method: EM (single particle) / Resolution: 12.9 Å
Source	escherichia coli (E. coli)
Keywords	TRANSLATION / RIBOSOME / RF2 / Release Complex / Conformational Changes