Mammalian 48S late-stage initiation complex with beta-globin mRNA
Map data
Sample
LS48S IC with beta-globin mRNA
LS48S IC
beta-globin mRNA
(nucleic-acidNucleic acid) x 3
60s ribosomal protein ul41
(40S Ribosomal protein ...) x 32
ribosomal protein RACK1
(Eukaryotic translation initiation factor 2 subunit ...) x 2
eukaryotic translation initiation factor 1A
ATP-binding cassette sub-family E member 1 (ABCE1)
(ligand) x 3
Function / homology
Function and homology information
laminin receptor activity / mammalian oogenesis stage / activation-induced cell death of T cells / DNA-(apurinic or apyrimidinic site) lyase / class I DNA-(apurinic or apyrimidinic site) endonuclease activity / erythrocyte development / TOR signaling / regulation of translational fidelity / T cell proliferation involved in immune response / mitotic cell cycle checkpoint ...laminin receptor activity / mammalian oogenesis stage / activation-induced cell death of T cells / DNA-(apurinic or apyrimidinic site) lyase / class I DNA-(apurinic or apyrimidinic site) endonuclease activity / erythrocyte development / TOR signaling / regulation of translational fidelity / T cell proliferation involved in immune response / mitotic cell cycle checkpoint / ribosomal small subunit biogenesis / gastrulation / polysome / laminin binding / translation initiation factor activity / polysomal ribosome / ribosomal small subunit assembly / cytoplasmic ribonucleoprotein granule / rough endoplasmic reticulum / placenta development / rRNA processing / cytoplasmic stress granule / spindle / cytoplasmic translation / G1/S transition of mitotic cell cycle / cell body / cytosolic small ribosomal subunit / regulation of translation / small ribosomal subunit / glucose homeostasis / T cell differentiation in thymus / mitochondrial inner membrane / rRNA binding / ribosome / structural constituent of ribosome / translation / cell differentiation / cell cycle / ATPase activity / cell division / mRNA binding / DNA repair / positive regulation of apoptotic process / dendrite / apoptotic process / nucleolus / positive regulation of cell population proliferation / protein kinase binding / negative regulation of apoptotic process / perinuclear region of cytoplasm / endoplasmic reticulum / RNA binding / zinc ion binding / ATP binding / plasma membrane / metal ion binding / nucleus / cytosol / cytoplasm
Ribosomal protein L23/L15e core domain superfamily / Ribosomal protein S3, eukaryotic/archaeal / Ribosomal protein L7Ae/L30e/S12e/Gadd45 / K Homology domain, type 2 / Ribosomal protein S25 / Ribosomal protein S5, C-terminal / Plectin/S10, N-terminal / Ribosomal protein S23, eukaryotic/archaeal / Ribosomal protein S2, eukaryotic/archaeal / ABC transporter-like ...Ribosomal protein L23/L15e core domain superfamily / Ribosomal protein S3, eukaryotic/archaeal / Ribosomal protein L7Ae/L30e/S12e/Gadd45 / K Homology domain, type 2 / Ribosomal protein S25 / Ribosomal protein S5, C-terminal / Plectin/S10, N-terminal / Ribosomal protein S23, eukaryotic/archaeal / Ribosomal protein S2, eukaryotic/archaeal / ABC transporter-like / Ribosomal protein S4/S9, eukaryotic/archaeal / Ribosomal protein S5, eukaryotic/archaeal / Ribosomal protein S19A/S15e / Ribosomal protein S5/S7, eukaryotic/archaeal / Ribosomal protein S10, eukaryotic/archaeal / KOW / AAA+ ATPase domain / S1 domain / RNA-binding domain, S1, IF1 type / Ribosomal protein S2 / Ribosomal protein S19e / Ribosomal protein S3, C-terminal / Ribosomal protein S6e / Ribosomal protein S3Ae / WD40 repeat / Ribosomal protein S10 / Ribosomal protein S13 / RNA-binding S4 domain / Ribosomal protein S4/S9, N-terminal / Ribosomal protein S21e / Ribosomal protein S11 / Ribosomal protein S24e / Ribosomal protein S19/S15 / Ribosomal protein S27a / Ribosomal protein S12/S23 / Ribosomal protein S30 / Ribosomal protein S17e / Translation initiation factor 1A (eIF-1A), conserved site / 4Fe-4S ferredoxin-type, iron-sulphur binding domain / 4Fe-4S ferredoxin, iron-sulphur binding, conserved site / WD40-repeat-containing domain / Ribosomal protein S4, conserved site / Ribosomal S24e conserved site / Ribosomal S11, conserved site / Ribosomal protein S2, conserved site / K homology domain-like, alpha/beta / Ribosomal protein S4e, N-terminal, conserved site / Ribosomal protein S10, conserved site / Ribosomal protein S13, conserved site / Ribosomal protein S14, conserved site / Ribosomal protein S17e, conserved site / Ribosomal protein S19e, conserved site / ABC transporter, conserved site / WD40/YVTN repeat-like-containing domain superfamily / RNase L inhibitor RLI-like, possible metal-binding domain / Nucleic acid-binding, OB-fold / Ribosomal protein L41 / K homology domain superfamily, prokaryotic type / S15/NS1, RNA-binding / Ribosomal protein S13-like, H2TH / Zinc-binding ribosomal protein / Translation initiation factor 2, alpha subunit / Ribosomal protein S13/S15, N-terminal / Ribosomal protein L2, domain 2 / Ribosomal protein S3Ae, conserved site / RLI1 / Ribosomal protein S5, N-terminal / Ribosomal protein S4e, N-terminal / Ribosomal protein S4e, central region / Ribosomal protein S6, eukaryotic / Ribosomal protein S5 domain 2-type fold, subgroup / Translation initiation factor 1A (eIF-1A) / Ribosomal protein S14 / Ribosomal protein S3, conserved site / Ubiquitin-like domain superfamily / WD40-repeat-containing domain superfamily / Ribosomal protein S8 superfamily / RLI, domain 1 / 40S ribosomal protein S11, N-terminal / 40S ribosomal protein SA, C-terminal domain / 40S ribosomal protein S4, C-terminal domain / 50S ribosomal protein L30e-like / Winged helix DNA-binding domain superfamily / Ribosomal protein S28e conserved site / Ribosomal protein S17, archaeal/eukaryotic / 40S ribosomal protein SA / 40S ribosomal protein S1/3, eukaryotes / Ribosomal protein S2, eukaryotic / Ribosomal protein S10 domain / Winged helix-like DNA-binding domain superfamily / Ribosomal protein S17e-like superfamily / Ribosomal protein S8e / Ribosomal protein S26e superfamily / Ribosomal protein S14/S29 / Ribosomal protein S8e subdomain, eukaryotes / Ribosomal protein S4, KOW domain / 40S ribosomal protein S29/30S ribosomal protein S14 type Z / S27a-like superfamily / Ribosomal protein S21e superfamily / Ribosomal protein S4e, central domain superfamily
40S ribosomal protein S3 / 40S ribosomal protein S4 / 40S ribosomal protein SA / 40S ribosomal protein S6 / 40S ribosomal protein S21 / 40S ribosomal protein S19 / 40S ribosomal protein S3a / 40S ribosomal protein S11 / 40S ribosomal protein S18 / S10_plectin domain-containing protein ...40S ribosomal protein S3 / 40S ribosomal protein S4 / 40S ribosomal protein SA / 40S ribosomal protein S6 / 40S ribosomal protein S21 / 40S ribosomal protein S19 / 40S ribosomal protein S3a / 40S ribosomal protein S11 / 40S ribosomal protein S18 / S10_plectin domain-containing protein / 40S ribosomal protein S28 / 40S ribosomal protein S24 / 40S ribosomal protein S17 / 40S ribosomal protein S2 / 40S ribosomal protein S27 / 40S ribosomal protein S15 / 40S ribosomal protein S29 / 40S ribosomal protein S8 / 40S ribosomal protein S25 / 40S ribosomal protein S15a / WD_REPEATS_REGION domain-containing protein / 60S ribosomal protein L41 / 40S ribosomal protein S6 / 40S ribosomal protein S9 / 40S ribosomal protein S12 / Uncharacterized protein / Uncharacterized protein / 40S ribosomal protein S20 / 40S ribosomal protein S27a / 40S ribosomal protein S26 / 40S ribosomal protein S13 / 40S ribosomal protein S7 / Eukaryotic translation initiation factor 4C / 40S ribosomal protein S23 / Uncharacterized protein / Eukaryotic translation initiation factor 2 subunit 1 / 40S ribosomal protein S30 / Ribosomal protein S5
Biological species
Oryctolagus cuniculus (rabbit) / Homo sapiens (human) / Rabbit (rabbit)
Method
single particle reconstruction / cryo EM / Resolution: 3 Å
Journal: Cell Rep / Year: 2020 Title: Structural Insights into the Mammalian Late-Stage Initiation Complexes. Authors: Angelita Simonetti / Ewelina Guca / Anthony Bochler / Lauriane Kuhn / Yaser Hashem / Abstract: In higher eukaryotes, the mRNA sequence in the direct vicinity of the start codon, called the Kozak sequence (CRCCaugG, where R is a purine), is known to influence the rate of the initiation process. ...In higher eukaryotes, the mRNA sequence in the direct vicinity of the start codon, called the Kozak sequence (CRCCaugG, where R is a purine), is known to influence the rate of the initiation process. However, the molecular basis underlying its role remains poorly understood. Here, we present the cryoelectron microscopy (cryo-EM) structures of mammalian late-stage 48S initiation complexes (LS48S ICs) in the presence of two different native mRNA sequences, β-globin and histone 4, at overall resolution of 3 and 3.5 Å, respectively. Our high-resolution structures unravel key interactions from the mRNA to eukaryotic initiation factors (eIFs): 1A, 2, 3, 18S rRNA, and several 40S ribosomal proteins. In addition, we are able to study the structural role of ABCE1 in the formation of native 48S ICs. Our results reveal a comprehensive map of ribosome/eIF-mRNA and ribosome/eIF-tRNA interactions and suggest the impact of mRNA sequence on the structure of the LS48S IC.
Name: initiator methionylated tRNA / Class: RNA Details: A at position 37 is modified (threonyl-carbamoyl-adenosine (t6A)) Structure: OTHER / Synthetic: No Sequence:
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Basic information
Map data
Sample
Function and homology information
DNA-(apurinic or apyrimidinic site) lyase / class I DNA-(apurinic or apyrimidinic site) endonuclease activity / erythrocyte development / 
Authors
France, 2 items 
Citation
Summary, 
About validation report
Structure visualization
emd_10760.png
Z (Sec.)
Y (Row.)
X (Col.)
Sample components
Electron microscopy imaging
Image processing