4BYT: Cryo-em Reconstruction Of The 80s-eif5b-met-itrnamet Eukaryotic Translation Initiation Complex

Citation:
Abstract
The last step in eukaryotic translational initiation involves the joining of the large and small subunits of the ribosome, with initiator transfer RNA (Met-tRNA(i)(Met)) positioned over the start codon of messenger RNA in the P site. This step is catalyzed by initiation factor eIF5B. We used recent advances in cryo-electron microscopy (cryo-EM) to determine a structure of the eIF5B initiation complex to 6.6 angstrom resolution from <3% of the population, comprising just 5143 particles. The structure reveals conformational changes in eIF5B, initiator tRNA, and the ribosome that provide insights into the role of eIF5B in translational initiation. The relatively high resolution obtained from such a small fraction of a heterogeneous sample suggests a general approach for characterizing the structure of other dynamic or transient biological complexes.
MMDB ID: 115560
PDB Deposition Date: 2013/7/20
Updated in MMDB: 2014/06
Experimental Method:
electron microscopy
Resolution: 6.6  Å
Source Organism:
Saccharomyces cerevisiae
Similar Structures:
Merged PDB IDs:4BYT 4BYU 4BYV 4BYW 4BYX
Biological Unit for 4BYT: 85-meric
Molecular Components in 4BYT
Label Count Molecule
Proteins (76 molecules)
1
40S Ribosomal Protein S27-a
Molecule annotation
1
40S Ribosomal Protein S26-a
Molecule annotation
1
40S Ribosomal Protein S29-a
Molecule annotation
1
40S Ribosomal Protein S28-a
Molecule annotation
1
Ubiquitin-40s Ribosomal Protein S31
Molecule annotation
1
40S Ribosomal Protein S30-a
Molecule annotation
1
Suppressor Protein Stm1
Molecule annotation
1
Guanine Nucleotide-binding Protein Subunit Beta-like Protein
Molecule annotation
1
40S Ribosomal Protein S0-a
Molecule annotation
1
40S Ribosomal Protein S2
Molecule annotation
1
40S Ribosomal Protein S1-a
Molecule annotation
1
40S Ribosomal Protein S4-a
Molecule annotation
1
40S Ribosomal Protein S3
Molecule annotation
1
40S Ribosomal Protein S6-a
Molecule annotation
1
40S Ribosomal Protein S5
Molecule annotation
1
40S Ribosomal Protein S8-a
Molecule annotation
1
40S Ribosomal Protein S7-a
Molecule annotation
1
40S Ribosomal Protein S10-a
Molecule annotation
1
40S Ribosomal Protein S9-a
Molecule annotation
1
40S Ribosomal Protein S12
Molecule annotation
1
40S Ribosomal Protein S11-a
Molecule annotation
1
40S Ribosomal Protein S14-a
Molecule annotation
1
40S Ribosomal Protein S13
Molecule annotation
1
40S Ribosomal Protein S16-a
Molecule annotation
1
40S Ribosomal Protein S15
Molecule annotation
1
40S Ribosomal Protein S18-a
Molecule annotation
1
40S Ribosomal Protein S17-a
Molecule annotation
1
40S Ribosomal Protein S20
Molecule annotation
1
40S Ribosomal Protein S19-a
Molecule annotation
1
40S Ribosomal Protein S22-a
Molecule annotation
1
40S Ribosomal Protein S21-a
Molecule annotation
1
40S Ribosomal Protein S24-a
Molecule annotation
1
40S Ribosomal Protein S23-a
Molecule annotation
1
40S Ribosomal Protein S25-a
Molecule annotation
1
60S Ribosomal Protein L2-b
Molecule annotation
1
60S Ribosomal Protein L3
Molecule annotation
1
60S Ribosomal Protein L4-a
Molecule annotation
1
60S Ribosomal Protein L5
Molecule annotation
1
60S Ribosomal Protein L6-a
Molecule annotation
1
60S Ribosomal Protein L7-a
Molecule annotation
1
60S Ribosomal Protein L8-a
Molecule annotation
1
60S Ribosomal Protein L9-a
Molecule annotation
1
60S Ribosomal Protein L10
Molecule annotation
1
60S Ribosomal Protein L11-a
Molecule annotation
1
60S Ribosomal Protein L13-a
Molecule annotation
1
60S Ribosomal Protein L14-b
Molecule annotation
1
60S Ribosomal Protein L15-a
Molecule annotation
1
60S Ribosomal Protein L16-a
Molecule annotation
1
60S Ribosomal Protein L17-a
Molecule annotation
1
60S Ribosomal Protein L18-a
Molecule annotation
1
60S Ribosomal Protein L19-b
Molecule annotation
1
60S Ribosomal Protein L20-b
Molecule annotation
1
60S Ribosomal Protein L21-a
Molecule annotation
1
60S Ribosomal Protein L22-a
Molecule annotation
1
60S Ribosomal Protein L23-a
Molecule annotation
1
60S Ribosomal Protein L24-a
Molecule annotation
1
60S Ribosomal Protein L25
Molecule annotation
1
60S Ribosomal Protein L26-a
Molecule annotation
1
60S Ribosomal Protein L27-a
Molecule annotation
1
60S Ribosomal Protein L28
Molecule annotation
1
60S Ribosomal Protein L29
Molecule annotation
1
60S Ribosomal Protein L30
Molecule annotation
1
60S Ribosomal Protein L31-a
Molecule annotation
1
60S Ribosomal Protein L32
Molecule annotation
1
60S Ribosomal Protein L33-a
Molecule annotation
1
60S Ribosomal Protein L34-a
Molecule annotation
1
60S Ribosomal Protein L35-b
Molecule annotation
1
60S Ribosomal Protein L36-a
Molecule annotation
1
60S Ribosomal Protein L37-a
Molecule annotation
1
60S Ribosomal Protein L38
Molecule annotation
1
60S Ribosomal Protein L39
Molecule annotation
1
Ubiquitin-60s Ribosomal Protein L40
Molecule annotation
1
60S Ribosomal Protein L41-b
Molecule annotation
1
60S Ribosomal Protein L42-a
Molecule annotation
1
60S Acidic Ribosomal Protein P0
Molecule annotation
1
Eukaryotic Translation Initiation Factor 5B, Probable Translation Initiation Factor If-2
Molecule annotation
Nucleotides(9 molecules)
1
60S Ribosomal Protein L11-a
Molecule annotation
1
60S Acidic Ribosomal Protein P1
Molecule annotation
1
60S Acidic Ribosomal Protein P2
Molecule annotation
1
18S Ribosomal RNA
Molecule annotation
1
25S Ribosomal RNA
Molecule annotation
1
5S Ribosomal RNA
Molecule annotation
1
5.8s Ribosomal RNA
Molecule annotation
1
Eukaryotic Ribosomal PI tRNA
Molecule annotation
1
5'-r(*ap*up*gp)-3'
Molecule annotation
Chemicals (424 molecules)
1
6
2
209
3
208
4
1
* Click molecule labels to explore molecular sequence information.

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