6V3E image
Deposition Date 2019-11-25
Release Date 2020-02-05
Last Version Date 2024-10-16
Entry Detail
PDB ID:
6V3E
Keywords:
Title:
Cryo-EM structure of the Acinetobacter baumannii Ribosome: 30S subunit
Biological Source:
Method Details:
Experimental Method:
Resolution:
4.40 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S2
Gene (Uniprot):rpsB
Chain IDs:B (auth: b)
Chain Length:250
Number of Molecules:1
Biological Source:Acinetobacter baumannii
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S3
Gene (Uniprot):rpsC
Chain IDs:C (auth: c)
Chain Length:250
Number of Molecules:1
Biological Source:Acinetobacter baumannii
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S4
Gene (Uniprot):rpsD
Chain IDs:D (auth: d)
Chain Length:208
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S5
Gene (Uniprot):rpsE
Chain IDs:E (auth: e)
Chain Length:165
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S6
Gene (Uniprot):rpsF
Chain IDs:F (auth: f)
Chain Length:127
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S7
Gene (Uniprot):rpsG
Chain IDs:G (auth: g)
Chain Length:156
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S8
Gene (Uniprot):rpsH
Chain IDs:H (auth: h)
Chain Length:131
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S9
Gene (Uniprot):rpsI
Chain IDs:I (auth: i)
Chain Length:128
Number of Molecules:1
Biological Source:Acinetobacter baumannii
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S10
Chain IDs:J (auth: j)
Chain Length:103
Number of Molecules:1
Biological Source:Acinetobacter sp. ANC 5600
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S11
Gene (Uniprot):rpsK
Chain IDs:K (auth: k)
Chain Length:128
Number of Molecules:1
Biological Source:Acinetobacter sp. 263903-1
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S12
Gene (Uniprot):rpsL
Chain IDs:L (auth: l)
Chain Length:124
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S13
Gene (Uniprot):rpsM
Chain IDs:M (auth: m)
Chain Length:118
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S14
Gene (Uniprot):rpsN
Chain IDs:N (auth: n)
Chain Length:101
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S15
Gene (Uniprot):rpsO
Chain IDs:O (auth: o)
Chain Length:89
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S16
Gene (Uniprot):rpsP
Chain IDs:P (auth: p)
Chain Length:101
Number of Molecules:1
Biological Source:Acinetobacter baumannii
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S17
Gene (Uniprot):rpsQ
Chain IDs:Q (auth: q)
Chain Length:85
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S18
Gene (Uniprot):rpsR
Chain IDs:R (auth: r)
Chain Length:75
Number of Molecules:1
Biological Source:Acinetobacter venetianus
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S19
Gene (Uniprot):rpsS
Chain IDs:S (auth: s)
Chain Length:91
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Polymer Type:polyribonucleotide
Molecule:16s Ribosomal RNA
Chain IDs:A (auth: sN1)
Chain Length:1544
Number of Molecules:1
Biological Source:Acinetobacter baumannii
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S20
Gene (Uniprot):rpsT
Chain IDs:T (auth: t)
Chain Length:88
Number of Molecules:1
Biological Source:Acinetobacter baumannii (strain AB0057)
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
2MG A G modified residue
4OC A C modified residue
5MC A C modified residue
7MG A G modified residue
MA6 A A modified residue
PSU A U modified residue
UR3 A U modified residue
Ligand Molecules
Primary Citation
Cryo-electron Microscopy Structure of the Acinetobacter baumannii 70S Ribosome and Implications for New Antibiotic Development.
Mbio 11 ? ? (2020)
PMID: 31964740 DOI: 10.1128/mBio.03117-19

Abstact

Antimicrobial resistance is a major health threat as it limits treatment options for infection. At the forefront of this serious issue is Acinetobacter baumannii, a Gram-negative opportunistic pathogen that exhibits the remarkable ability to resist antibiotics through multiple mechanisms. As bacterial ribosomes represent a target for multiple distinct classes of existing antimicrobial agents, we here use single-particle cryo-electron microscopy (cryo-EM) to elucidate five different structural states of the A. baumannii ribosome, including the 70S, 50S, and 30S forms. We also determined interparticle motions of the 70S ribosome in different tRNA bound states using three-dimensional (3D) variability analysis. Together, our structural data further our understanding of the ribosome from A. baumannii and other Gram-negative pathogens and will enable structure-based drug discovery to combat antibiotic-resistant bacterial infections.IMPORTANCEAcinetobacter baumannii is a severe nosocomial threat largely due to its intrinsic antibiotic resistance and remarkable ability to acquire new resistance determinants. The bacterial ribosome serves as a major target for modern antibiotics and the design of new therapeutics. Here, we present cryo-EM structures of the A. baumannii 70S ribosome, revealing several unique species-specific structural features that may facilitate future drug development to combat this recalcitrant bacterial pathogen.

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Primary Citation of related structures