2OM7 image
Deposition Date 2007-01-21
Release Date 2008-01-15
Last Version Date 2023-12-27
Entry Detail
PDB ID:
2OM7
Keywords:
Title:
Structural Basis for Interaction of the Ribosome with the Switch Regions of GTP-bound Elongation Factors
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
7.30 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polyribonucleotide
Molecule:Fragment of 16S rRNA (h14)
Chain IDs:A
Chain Length:12
Number of Molecules:1
Biological Source:Thermus thermophilus
Polymer Type:polyribonucleotide
Molecule:Fragment of 16S rRNA (h15)
Chain IDs:B
Chain Length:28
Number of Molecules:1
Biological Source:Thermus thermophilus
Polymer Type:polyribonucleotide
Molecule:Fragment of 16S rRNA (h44)
Chain IDs:C
Chain Length:96
Number of Molecules:1
Biological Source:Thermus thermophilus
Polymer Type:polyribonucleotide
Molecule:16S ribosomal RNA (H5)
Chain IDs:D
Chain Length:303
Number of Molecules:1
Biological Source:Thermus thermophilus
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S12
Chain IDs:K (auth: E)
Chain Length:135
Number of Molecules:1
Biological Source:Thermus thermophilus
Polymer Type:polyribonucleotide
Molecule:Fragment of23S rRNA (H95)
Chain IDs:E (auth: F)
Chain Length:29
Number of Molecules:1
Biological Source:Thermus thermophilus
Polymer Type:polyribonucleotide
Molecule:Fragment of23S rRNA (H68)
Chain IDs:F (auth: G)
Chain Length:54
Number of Molecules:1
Biological Source:Thermus thermophilus
Polymer Type:polyribonucleotide
Molecule:Fragment of23S rRNA (H89)
Chain IDs:G (auth: H)
Chain Length:42
Number of Molecules:1
Biological Source:Thermus thermophilus
Polymer Type:polyribonucleotide
Molecule:Fragment of23S rRNA (H42-44)
Chain IDs:H (auth: I)
Chain Length:58
Number of Molecules:1
Biological Source:Thermus thermophilus
Polymer Type:polyribonucleotide
Molecule:Fragment of23S rRNA (H76)
Chain IDs:I (auth: J)
Chain Length:102
Number of Molecules:1
Biological Source:Thermus thermophilus
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L1
Gene (Uniprot):rplA
Chain IDs:L (auth: K)
Chain Length:229
Number of Molecules:1
Biological Source:Thermus thermophilus
Polymer Type:polypeptide(L)
Molecule:Elongation factor G
Chain IDs:M (auth: L)
Chain Length:691
Number of Molecules:1
Biological Source:Thermus thermophilus
Polymer Type:polyribonucleotide
Molecule:p/E-tRNA
Chain IDs:J (auth: M)
Chain Length:74
Number of Molecules:1
Biological Source:Thermus thermophilus
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S2
Gene (Uniprot):rpsB
Chain IDs:N
Chain Length:256
Number of Molecules:1
Biological Source:Thermus thermophilus
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
4SU J U 4-THIOURIDINE-5'-MONOPHOSPHATE
5MC J C 5-METHYLCYTIDINE-5'-MONOPHOSPHATE
5MU J U 5-METHYLURIDINE 5'-MONOPHOSPHATE
H2U J U 5,6-DIHYDROURIDINE-5'-MONOPHOSPHATE
PSU J U PSEUDOURIDINE-5'-MONOPHOSPHATE
Ligand Molecules
Primary Citation
Structural basis for interaction of the ribosome with the switch regions of GTP-bound elongation factors.
Mol.Cell 25 751 764 (2007)
PMID: 17349960 DOI: 10.1016/j.molcel.2007.01.027

Abstact

Elongation factor G (EF-G) catalyzes tRNA translocation on the ribosome. Here a cryo-EM reconstruction of the 70S*EF-G ribosomal complex at 7.3 A resolution and the crystal structure of EF-G-2*GTP, an EF-G homolog, at 2.2 A resolution are presented. EF-G-2*GTP is structurally distinct from previous EF-G structures, and in the context of the cryo-EM structure, the conformational changes are associated with ribosome binding and activation of the GTP binding pocket. The P loop and switch II approach A2660-A2662 in helix 95 of the 23S rRNA, indicating an important role for these conserved bases. Furthermore, the ordering of the functionally important switch I and II regions, which interact with the bound GTP, is dependent on interactions with the ribosome in the ratcheted conformation. Therefore, a network of interaction with the ribosome establishes the active GTP conformation of EF-G and thus facilitates GTP hydrolysis and tRNA translocation.

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Primary Citation of related structures