ISDA

Deposition Date 2005-04-02

Release Date 2005-05-17

Last Version Date 2024-03-13

Entry Detail

PDB ID:

1X18

Keywords:

STRUCTURAL PROTEIN/RNA

Title:

Contact sites of ERA GTPase on the THERMUS THERMOPHILUS 30S SUBUNIT

Biological Source:

Source Organism:

Thermus thermophilus (Taxon ID: 274)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

13.50 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Polymer Type:polyribonucleotide
Molecule:5'-R(P*CP*GP*AP*UP*GP*GP*CP*GP*AP*AP*G)-3'
Chain IDs:A
Chain Length:11
Number of Molecules:1
Biological Source:Thermus thermophilus

Polymer Type:polyribonucleotide
Molecule:RNA (31-MER)
Chain IDs:B
Chain Length:31
Number of Molecules:1
Biological Source:Thermus thermophilus

Polymer Type:polyribonucleotide
Molecule:5'-R(P*UP*UP*CP*CP*CP*GP*GP*GP*CP*CP*UP*GP*GP*GP*GP*CP*CP*CP*GP*C)-3'
Chain IDs:C
Chain Length:20
Number of Molecules:1
Biological Source:Thermus thermophilus

Polymer Type:polyribonucleotide
Molecule:5'-R(P*UP*GP*UP*UP*GP*GP*GP*UP*UP*AP*AP*GP*UP*CP*CP*CP*GP*CP*AP*AP*CP*GP*AP*G)-3'
Chain IDs:D
Chain Length:24
Number of Molecules:1
Biological Source:Thermus thermophilus

Protein Blast

Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S2
Gene (Uniprot):rpsB
Chain IDs:E
Chain Length:231
Number of Molecules:1
Biological Source:Thermus thermophilus

UniProt ID:P80371 Pfam ID:PF00318

Protein Blast

Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S7
Gene (Uniprot):rpsG
Chain IDs:F
Chain Length:154
Number of Molecules:1
Biological Source:Thermus thermophilus

UniProt ID:P17291 Pfam ID:PF00177

Protein Blast

Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S11
Gene (Uniprot):rpsK
Chain IDs:G
Chain Length:119
Number of Molecules:1
Biological Source:Thermus thermophilus

UniProt ID:P80376 Pfam ID:PF00411

Protein Blast

Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S18
Chain IDs:H
Chain Length:73
Number of Molecules:1
Biological Source:Thermus thermophilus

UniProt ID:Q5SLQ0 Pfam ID:PF01084

Polymer Type:polypeptide(L)
Molecule:GTP-binding protein era
Chain IDs:I (auth: X)
Chain Length:292
Number of Molecules:1
Biological Source:Thermus thermophilus

Ligand Molecules

Primary Citation

Interaction of Era with the 30S Ribosomal Subunit Implications for 30S Subunit Assembly

Sharma, M.R, Barat, C, Wilson, D.N, Booth, T.M, Kawazoe, M, Hori-Takemoto, C, Shirouzu, M, Yokoyama, S, Fucini, P, Agrawal, R.K, Wimberly, B.T, Brodersen, D.E, Clemons Jr, W.M, Morgan-Warren, R.J, Carter, A.P, Vonrhein, C, Hartsch, T, Ramakrishnan, V, Chen, X, Court, D.L, Ji, X, Kawazoe, M, Takemoto, C, Kaminishi, T, Sekine, S, Shirouzu, M, Fucini, P, Agrawal, R.K, Yokoyama, S.Show

Mol.Cell 18 319 329 (2005)

PMID: 15866174 DOI: 10.1016/j.molcel.2005.03.028

Abstact

Era (E. coliRas-like protein) is a highly conserved and essential GTPase in bacteria. It binds to the 16S ribosomal RNA (rRNA) of the small (30S) ribosomal subunit, and its depletion leads to accumulation of an unprocessed precursor of the 16S rRNA. We have obtained a three-dimensional cryo-electron microscopic map of the Thermus thermophilus 30S-Era complex. Era binds in the cleft between the head and platform of the 30S subunit and locks the subunit in a conformation that is not favorable for association with the large (50S) ribosomal subunit. The RNA binding KH motif present within the C-terminal domain of Era interacts with the conserved nucleotides in the 3' region of the 16S rRNA. Furthermore, Era makes contact with several assembly elements of the 30S subunit. These observations suggest a direct involvement of Era in the assembly and maturation of the 30S subunit.

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Primary Citation of related structures