ISDA

Deposition Date 2012-03-30

Release Date 2012-09-05

Last Version Date 2023-11-08

Entry Detail

PDB ID:

3VQT

Keywords:

TRANSLATION

Title:

Crystal structure analysis of the translation factor RF3

Biological Source:

Source Organism:

Desulfovibrio vulgaris (Taxon ID: 883)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.80 Å

R-Value Free:

0.21

R-Value Work:

0.17

R-Value Observed:

0.17

Space Group:

P 1

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Peptide chain release factor 3
Gene (Uniprot):prfC
Chain IDs:A, B, C, D
Chain Length:548
Number of Molecules:4
Biological Source:Desulfovibrio vulgaris

UniProt ID:B8DIL5 Pfam ID:PF00009, PF22042, PF16658

Ligand Molecules

GDP

Primary Citation

Crystal structure analysis of the translation factor RF3 (release factor 3)

Kihira, K, Shimizu, Y, Shomura, Y, Shibata, N, Kitamura, M, Nakagawa, A, Ueda, T, Ochi, K, Higuchi, Y.Show

Febs Lett. 586 3705 3709 (2012)

PMID: 22975312 DOI: 10.1016/j.febslet.2012.08.029

Abstact

The bacterial translational GTPases release factor RF3 promotes translation termination by recycling RF1 or RF2. Here, we present the crystal structures of RF3 complexed with GDP and guanosine 3',5'-(bis)diphosphate (ppGpp) at resolutions of 1.8 and 3.0Å, respectively. ppGpp is involved in the so-called "stringent response" of bacteria. ppGpp binds at the same site as GDP, suggesting that GDP and ppGpp are two alternative physiologically relevant ligands of RF3. We also found that ppGpp decelerates the recycling of RF1 by RF3. These lines of evidence suggest that RF3 functions both as a cellular metabolic sensor and as a regulator.

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Primary Citation of related structures