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	Decoding Mammalian Ribosome-mRNA States by Translational GTPase Complexes.
Journal, issue, pages	Cell, Vol. 167, Issue 5, Page 1229-1240.e15, Year 2016
Publish date	Nov 17, 2016
Authors	Sichen Shao / Jason Murray / Alan Brown / Jack Taunton / V Ramakrishnan / Ramanujan S Hegde /
PubMed Abstract	In eukaryotes, accurate protein synthesis relies on a family of translational GTPases that pair with specific decoding factors to decipher the mRNA code on ribosomes. We present structures of the ...In eukaryotes, accurate protein synthesis relies on a family of translational GTPases that pair with specific decoding factors to decipher the mRNA code on ribosomes. We present structures of the mammalian ribosome engaged with decoding factor⋅GTPase complexes representing intermediates of translation elongation (aminoacyl-tRNA⋅eEF1A), termination (eRF1⋅eRF3), and ribosome rescue (Pelota⋅Hbs1l). Comparative analyses reveal that each decoding factor exploits the plasticity of the ribosomal decoding center to differentially remodel ribosomal proteins and rRNA. This leads to varying degrees of large-scale ribosome movements and implies distinct mechanisms for communicating information from the decoding center to each GTPase. Additional structural snapshots of the translation termination pathway reveal the conformational changes that choreograph the accommodation of decoding factors into the peptidyl transferase center. Our results provide a structural framework for how different states of the mammalian ribosome are selectively recognized by the appropriate decoding factor⋅GTPase complex to ensure translational fidelity.
External links	Cell / PubMed:27863242 / PubMed Central
Methods	EM (single particle)
Resolution	3.06 - 3.99 Å
Structure data	EMDB-4129: Structure of the mammalian ribosome with P- and E-site tRNAs and an unoccupied A site Method: EM (single particle) / Resolution: 3.06 Å 4130 5lzs EMDB-4130, PDB-5lzs: Structure of the mammalian ribosomal elongation complex with aminoacyl-tRNA, eEF1A, and didemnin B Method: EM (single particle) / Resolution: 3.31 Å 4131 5lzt EMDB-4131, PDB-5lzt: Structure of the mammalian ribosomal termination complex with eRF1 and eRF3. Method: EM (single particle) / Resolution: 3.65 Å 4132 5lzu EMDB-4132, PDB-5lzu: Structure of the mammalian ribosomal termination complex with accommodated eRF1 Method: EM (single particle) / Resolution: 3.75 Å 4133 5lzv EMDB-4133, PDB-5lzv: Structure of the mammalian ribosomal termination complex with accommodated eRF1(AAQ) and ABCE1. Method: EM (single particle) / Resolution: 3.35 Å 4134 5lzw EMDB-4134, PDB-5lzw: Structure of the mammalian rescue complex with Pelota and Hbs1l assembled on a truncated mRNA. Method: EM (single particle) / Resolution: 3.53 Å 4135 5lzx EMDB-4135, PDB-5lzx: Structure of the mammalian rescue complex with Pelota and Hbs1l assembled on a UGA stop codon. Method: EM (single particle) / Resolution: 3.67 Å 4136 5lzy EMDB-4136, PDB-5lzy: Structure of the mammalian rescue complex with Pelota and Hbs1l assembled on a polyadenylated mRNA. Method: EM (single particle) / Resolution: 3.99 Å 4137 5lzz EMDB-4137, PDB-5lzz: Structure of the mammalian rescue complex with Pelota and Hbs1l (combined) Method: EM (single particle) / Resolution: 3.47 Å
Chemicals	ChemComp-MG: Unknown entry ChemComp-ZN: Unknown entry ChemComp-GDP: GUANOSINE-5'-DIPHOSPHATE / GDP, energy-carrying moleculeYM / Guanosine diphosphate ChemComp-7C4: (2~{S})-~{N}-[(2~{R})-1-[[(3~{S},6~{S},8~{S},12~{S},13~{R},16~{S},17~{R},20~{S},23~{S})-13-[(2~{S})-butan-2-yl]-20-[(4-methoxyphenyl)methyl]-6,17,21-trimethyl-3-(2-methylpropyl)-12-oxidanyl-2,5,7,10,15,19,22-heptakis(oxidanylidene)-8-propan-2-yl-9,18-dioxa-1,4,14,21-tetrazabicyclo[21.3.0]hexacosan-16-yl]amino]-4-methyl-1-oxidanylidene-pentan-2-yl]-~{N}-methyl-1-[(2~{S})-2-oxidanylpropanoyl]pyrrolidine-2-carboxamide ChemComp-GCP: PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER / GMP-PCP, energy-carrying molecule analogueYM ChemComp-SF4: IRON/SULFUR CLUSTER / Iron–sulfur cluster
Source	oryctolagus cuniculus (rabbit) Rabbit (rabbit) homo sapiens (human)
Keywords	RIBOSOME / Translation / Elongation