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	Analysis of translating mitoribosome reveals functional characteristics of translation in mitochondria of fungi.
Journal, issue, pages	Nat Commun, Vol. 11, Issue 1, Page 5187, Year 2020
Publish date	Oct 14, 2020
Authors	Yuzuru Itoh / Andreas Naschberger / Narges Mortezaei / Johannes M Herrmann / Alexey Amunts /
PubMed Abstract	Mitoribosomes are specialized protein synthesis machineries in mitochondria. However, how mRNA binds to its dedicated channel, and tRNA moves as the mitoribosomal subunit rotate with respect to each ...Mitoribosomes are specialized protein synthesis machineries in mitochondria. However, how mRNA binds to its dedicated channel, and tRNA moves as the mitoribosomal subunit rotate with respect to each other is not understood. We report models of the translating fungal mitoribosome with mRNA, tRNA and nascent polypeptide, as well as an assembly intermediate. Nicotinamide adenine dinucleotide (NAD) is found in the central protuberance of the large subunit, and the ATPase inhibitory factor 1 (IF) in the small subunit. The models of the active mitoribosome explain how mRNA binds through a dedicated protein platform on the small subunit, tRNA is translocated with the help of the protein mL108, bridging it with L1 stalk on the large subunit, and nascent polypeptide paths through a newly shaped exit tunnel involving a series of structural rearrangements. An assembly intermediate is modeled with the maturation factor Atp25, providing insight into the biogenesis of the mitoribosomal large subunit and translation regulation.
External links	Nat Commun / PubMed:33056988 / PubMed Central
Methods	EM (single particle)
Resolution	2.7 - 3.5 Å
Structure data	10958 6yw5 EMDB-10958, PDB-6yw5: The structure of the small subunit of the mitoribosome from Neurospora crassa Method: EM (single particle) / Resolution: 2.85 Å EMDB-10961: Cryo-EM map of the head of the small subunit of the mitoribosome from Neurospora crassa. Method: EM (single particle) / Resolution: 2.79 Å EMDB-10962: Cryo-EM map of the body of the small subunit of the mitoribosome from Neurospora crassa. Method: EM (single particle) / Resolution: 2.79 Å EMDB-10963: Cryo-EM map of the tail of the small subunit of the mitoribosome from Neurospora crassa. Method: EM (single particle) / Resolution: 2.86 Å 10965 6ywe EMDB-10965, PDB-6ywe: The structure of the mitoribosome from Neurospora crassa in the P/E tRNA bound state Method: EM (single particle) / Resolution: 2.99 Å EMDB-10966: Cryo-EM map of the core of the large subunit of the mitoribosome from Neurospora crassa with tRNA in the P/E state Method: EM (single particle) / Resolution: 2.9 Å EMDB-10967: Cryo-EM map of the L10 region of the mitoribosome from Neurospora crassa with tRNA in the P/E state Method: EM (single particle) / Resolution: 3.14 Å EMDB-10968: Cryo-EM map of the CP of the mitoribosome from Neurospora crassa with tRNA in the P/E state Method: EM (single particle) / Resolution: 3.12 Å EMDB-10969: Cryo-EM map of the head of the small subunit of the mitoribosome from Neurospora crassa with tRNA in the P/E state Method: EM (single particle) / Resolution: 2.94 Å EMDB-10970: Cryo-EM map of the body of the small subunit of the mitoribosome from Neurospora crassa with tRNA in the P/E state Method: EM (single particle) / Resolution: 2.94 Å EMDB-10971: Cryo-EM map of the L1 stalk region of the mitoribosome from Neurospora crassa with tRNA in the P/E state Method: EM (single particle) / Resolution: 3.48 Å EMDB-10972: Cryo-EM map of the tail region of the mitoribosome from Neurospora crassa with tRNA in the P/E state Method: EM (single particle) / Resolution: 2.99 Å 10973 6yws EMDB-10973, PDB-6yws: The structure of the large subunit of the mitoribosome from Neurospora crassa Method: EM (single particle) / Resolution: 2.74 Å EMDB-10974: Cryo-EM map of the core of the large subunit of the mitoribosome from Neurospora crassa Method: EM (single particle) / Resolution: 2.7 Å EMDB-10975: Cryo-EM map of the L10 region of the large subunit of the mitoribosome from Neurospora crassa Method: EM (single particle) / Resolution: 3.0 Å EMDB-10976: Cryo-EM map of the CP of the large subunit of the mitoribosome from Neurospora crassa. Method: EM (single particle) / Resolution: 2.88 Å 10977 6ywv EMDB-10977, PDB-6ywv: The structure of the Atp25 bound assembly intermediate of the mitoribosome from Neurospora crassa Method: EM (single particle) / Resolution: 3.03 Å 10978 6ywx EMDB-10978, PDB-6ywx: The structure of the mitoribosome from Neurospora crassa with tRNA bound to the E-site Method: EM (single particle) / Resolution: 3.1 Å EMDB-10979: Cryo-EM map of the core of the large subunit of the mitoribosome from Neurospora crassa with tRNA bound to the E-site Method: EM (single particle) / Resolution: 2.99 Å EMDB-10980: Cryo-EM map of the L10 region of the mitoribosome from Neurospora crassa with tRNA bound to the E-site Method: EM (single particle) / Resolution: 3.5 Å EMDB-10981: Cryo-EM map of the CP of the mitoribosome from Neurospora crassa Method: EM (single particle) / Resolution: 3.14 Å EMDB-10982: Cryo-EM map of the head of the small subunit of the mitoribosome from Neurospora crassa Method: EM (single particle) / Resolution: 3.14 Å EMDB-10983: Cryo-EM map of the tail of the small subunit of the mitoribosome from Neurospora crassa with tRNA bound to the E-site Method: EM (single particle) / Resolution: 3.21 Å EMDB-10984: Cryo-EM map of the body of the small subunit of the mitoribosome from Neurospora crassa with tRNA bound to the E-site Method: EM (single particle) / Resolution: 3.07 Å 10985 6ywy EMDB-10985, PDB-6ywy: The structure of the mitoribosome from Neurospora crassa with bound tRNA at the P-site Method: EM (single particle) / Resolution: 3.05 Å EMDB-10986: Cryo-EM map of the core of the large subunit of the mitoribosome from Neurospora crassa with tRNA bound to the P-site Method: EM (single particle) / Resolution: 2.97 Å EMDB-10988: Cryo-EM map of the L10 region of the mitoribosome from Neurospora crassa with tRNA bound to the P-site Method: EM (single particle) / Resolution: 3.07 Å EMDB-10989: Cryo-EM map of the CP of the mitoribosome from Neurospora crassa with tRNA bound to the P-site Method: EM (single particle) / Resolution: 3.01 Å EMDB-10990: Cryo-EM map of the head of the small subunit of the mitoribosome from Neurospora crassa with tRNA bound to the P-site Method: EM (single particle) / Resolution: 3.03 Å EMDB-10991: Cryo-EM map of the body of the small subunit of the mitoribosome from Neurospora crassa with tRNA bound to the P-site Method: EM (single particle) / Resolution: 3.03 Å EMDB-10992: Cryo-EM map for the tail of the small subunit of the mitoribosome from Neurospora crassa with tRNA bound to the P-site Method: EM (single particle) / Resolution: 3.01 Å
Chemicals	ChemComp-MG: Unknown entry ChemComp-ATP: ADENOSINE-5'-TRIPHOSPHATE / ATP, energy-carrying moleculeYM / Adenosine triphosphate ChemComp-K: Unknown entry ChemComp-SPM: SPERMINE / Spermine ChemComp-ZN: Unknown entry ChemComp-NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE / NADYM / Nicotinamide adenine dinucleotide
Source	neurospora crassa or74a (fungus) neurospora crassa (fungus)
Keywords	TRANSLATION / Neurospora crassa / translating Mitoribosomes / tRNA / mRNA / mL108