PDBsum entry 3j5s

Ribosome/translation

PDB id: 3j5s

Contents

Protein chains

554 a.a.

234 a.a.

178 a.a.

50 a.a.

151 a.a.

DNA/RNA

PDB id:

3j5s

Name:

Ribosome/translation

Title:

Etta binds to ribosome exit site and regulates translation by restricting ribosome and tRNA dynamics

Structure:

16s ribosomal RNA. Chain: b. Fragment: see remark 999. 23s ribosomal RNA. Chain: a. Fragment: see remark 999. P-site tRNA fmet. Chain: e. Energy-dependent translational throttle a (etta).

Source:

Escherichia coli. Organism_taxid: 562. Strain: mre600. Organism_taxid: 511145. Strain: k12 substr. Mg1655. Gene: yjjk. Expressed in: escherichia coli. Expression_system_taxid: 511145. Strain: mre600

Authors:

Y.Hashem

Key ref:

B.Chen et al. (2014). EttA regulates translation by binding the ribosomal E site and restricting ribosome-tRNA dynamics. Nat Struct Biol, 21, 152-159. PubMed id: 24389465 DOI: 10.1038/nsmb.2741

Date:

15-Nov-13 Release date: 08-Jan-14

Protein chain

P0A9W3  (ETTA_ECOLI) -  Energy-dependent translational throttle protein EttA from Escherichia coli (strain K12)

Seq: 555 a.a.

Struc: 554 a.a.

Protein chain

P0A7L0  (RL1_ECOLI) -  Large ribosomal subunit protein uL1 from Escherichia coli (strain K12)

Seq: 234 a.a.

Struc: 234 a.a.

Protein chain

P62399  (RL5_ECOLI) -  Large ribosomal subunit protein uL5 from Escherichia coli (strain K12)

Seq: 179 a.a.

Struc: 178 a.a.

Protein chain

P0A7N9  (RL33_ECOLI) -  Large ribosomal subunit protein bL33 from Escherichia coli (strain K12)

Seq: 55 a.a.

Struc: 50 a.a.

Protein chain

P02359  (RS7_ECOLI) -  Small ribosomal subunit protein uS7 from Escherichia coli (strain K12)

Seq: 179 a.a.

Struc: 151 a.a.

DNA/RNA chains

A-C-A-A-U-G-G-C-G-C-A-G-U-G-C-G-U-C-G-U-A-G-U-C-C-G-G-A-A-G-U-C 32 bases

U-G-C-C-C-G-G-U-G-C-C-G-G-A-A-G-G-U-U-A-A-U-U-G-A-U-G-G-G-G-U-U-A-G-C-G-C-A-A- 174 bases

C-G-C-G-G-G-G-U-G-G-A-G-C-A-G-C-C-U-G-G-U-A-G-C-U-C-G-U-C-G-G-G-C-U-C-A-U-A-A- 77 bases

Enzyme reactions

• Enzyme class 2: Chain D: E.C.3.6.1.- - ?????
• Enzyme class 3: Chains F, G, H, I: E.C.?

Note, where more than one E.C. class is given (as above), each may correspond to a different protein domain or, in the case of polyprotein precursors, to a different mature protein.

DOI no: 10.1038/nsmb.2741

Nat Struct Biol 21:152-159 (2014)

PubMed id: 24389465

EttA regulates translation by binding the ribosomal E site and restricting ribosome-tRNA dynamics.

B.Chen, G.Boël, Y.Hashem, W.Ning, J.Fei, C.Wang, R.L.Gonzalez, J.F.Hunt, J.Frank.

ABSTRACT

Cells express many ribosome-interacting factors whose functions and molecular mechanisms remain unknown. Here, we elucidate the mechanism of a newly characterized regulatory translation factor, energy-dependent translational throttle A (EttA), which is an Escherichia coli representative of the ATP-binding cassette F (ABC-F) protein family. Using cryo-EM, we demonstrate that the ATP-bound form of EttA binds to the ribosomal tRNA-exit site, where it forms bridging interactions between the ribosomal L1 stalk and the tRNA bound in the peptidyl-tRNA-binding site. Using single-molecule fluorescence resonance energy transfer, we show that the ATP-bound form of EttA restricts ribosome and tRNA dynamics required for protein synthesis. This work represents the first example, to our knowledge, in which the detailed molecular mechanism of any ABC-F family protein has been determined and establishes a framework for elucidating the mechanisms of other regulatory translation factors.