6V3E

Cryo-EM structure of the Acinetobacter baumannii Ribosome: 30S subunit


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report



Literature

Cryo-electron Microscopy Structure of the Acinetobacter baumannii 70S Ribosome and Implications for New Antibiotic Development.

Morgan, C.E.Huang, W.Rudin, S.D.Taylor, D.J.Kirby, J.E.Bonomo, R.A.Yu, E.W.

(2020) mBio 11

  • DOI: 10.1128/mBio.03117-19
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • 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 ...

    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. IMPORTANCE Acinetobacter 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.


    Organizational Affiliation

    Department of Pharmacology, Case Western Reserve University School of Medicine, Cleveland, Ohio, USA edward.w.yu@case.edu.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S10
j
103Acinetobacter sp. ANC 5600Mutation(s): 0 
Gene Names: rpsJB1201_04115
Find proteins for A0A1T1GZ10 (Acinetobacter sp. ANC 5600)
Go to UniProtKB:  A0A1T1GZ10

Find similar proteins by: Sequence  |  Structure

Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S11
k
128Acinetobacter sp. 263903-1Mutation(s): 0 
Gene Names: rpsKJ577_0021
Find proteins for A0A062C259 (Acinetobacter sp. 263903-1)
Go to UniProtKB:  A0A062C259

Find similar proteins by: Sequence  |  Structure

Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S12
l
124Acinetobacter baumannii AB0057Mutation(s): 0 
Gene Names: rpsLAB57_0911
Find proteins for B7I7R9 (Acinetobacter baumannii (strain AB0057))
Go to UniProtKB:  B7I7R9

Find similar proteins by: Sequence  |  Structure

Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S13
m
118Acinetobacter baumannii AB0057Mutation(s): 0 
Gene Names: rpsMAB57_3508
Find proteins for B7IA17 (Acinetobacter baumannii (strain AB0057))
Go to UniProtKB:  B7IA17

Find similar proteins by: Sequence  |  Structure

Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S14
n
101Acinetobacter baumannii AB0057Mutation(s): 0 
Gene Names: rpsNAB57_3517
Find proteins for B7IA26 (Acinetobacter baumannii (strain AB0057))
Go to UniProtKB:  B7IA26

Find similar proteins by: Sequence  |  Structure

Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S15
o
89Acinetobacter baumannii AB0057Mutation(s): 0 
Gene Names: rpsOAB57_0438
Find proteins for B7I3U0 (Acinetobacter baumannii (strain AB0057))
Go to UniProtKB:  B7I3U0

Find similar proteins by: Sequence  |  Structure

Entity ID: 16
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S16
p
101Acinetobacter baumanniiMutation(s): 0 
Gene Names: rpsPB4R90_06690B9W69_03135B9X95_19530
Find proteins for A0A1V3DIZ9 (Acinetobacter baumannii)
Go to UniProtKB:  A0A1V3DIZ9

Find similar proteins by: Sequence  |  Structure

Entity ID: 17
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S17
q
85Acinetobacter baumannii AB0057Mutation(s): 0 
Gene Names: rpsQAB57_3521
Find proteins for B7IA30 (Acinetobacter baumannii (strain AB0057))
Go to UniProtKB:  B7IA30

Find similar proteins by: Sequence  |  Structure

Entity ID: 18
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S18
r
75Acinetobacter venetianusMutation(s): 0 
Gene Names: rpsRAVENLUH13518_00382AVENLUH5627_01667AYL20_00180
Find proteins for A0A150HZL5 (Acinetobacter venetianus)
Go to UniProtKB:  A0A150HZL5

Find similar proteins by: Sequence  |  Structure

Entity ID: 19
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S19
s
91Acinetobacter baumannii AB0057Mutation(s): 0 
Gene Names: rpsSAB57_3526
Find proteins for B7IA35 (Acinetobacter baumannii (strain AB0057))
Go to UniProtKB:  B7IA35

Find similar proteins by: Sequence  |  Structure

Find similar proteins by: Sequence  |  Structure

Entity ID: 20
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S20
t
88Acinetobacter baumannii AB0057Mutation(s): 0 
Gene Names: rpsTAB57_1842
Find proteins for B7I5N9 (Acinetobacter baumannii (strain AB0057))
Go to UniProtKB:  B7I5N9

Find similar proteins by: Sequence  |  Structure

Find similar proteins by: Sequence  |  Structure

Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S4
d
208Acinetobacter baumannii AB0057Mutation(s): 0 
Gene Names: rpsDAB57_3506
Find proteins for B7IA15 (Acinetobacter baumannii (strain AB0057))
Go to UniProtKB:  B7IA15

Find similar proteins by: Sequence  |  Structure

Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S5
e
165Acinetobacter baumannii AB0057Mutation(s): 0 
Gene Names: rpsEAB57_3513
Find proteins for B7IA22 (Acinetobacter baumannii (strain AB0057))
Go to UniProtKB:  B7IA22

Find similar proteins by: Sequence  |  Structure

Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S6
f
127Acinetobacter baumannii AB0057Mutation(s): 0 
Gene Names: rpsFAB57_2509
Find proteins for B7IBC1 (Acinetobacter baumannii (strain AB0057))
Go to UniProtKB:  B7IBC1

Find similar proteins by: Sequence  |  Structure

Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S7
g
156Acinetobacter baumannii AB0057Mutation(s): 0 
Gene Names: rpsGAB57_0912
Find proteins for B7I7S0 (Acinetobacter baumannii (strain AB0057))
Go to UniProtKB:  B7I7S0

Find similar proteins by: Sequence  |  Structure

Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S8
h
131Acinetobacter baumannii AB0057Mutation(s): 0 
Gene Names: rpsHAB57_3516
Find proteins for B7IA25 (Acinetobacter baumannii (strain AB0057))
Go to UniProtKB:  B7IA25

Find similar proteins by: Sequence  |  Structure

Find similar nucleic acids by: Sequence   |  Structure

Entity ID: 1
MoleculeChainsLengthOrganism
16s Ribosomal RNAsN11544Acinetobacter baumannii
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Deposited Date: 2019-11-25 
  • Released Date: 2020-02-05 
  • Deposition Author(s): Morgan, C.E., Yu, E.W.

Funding OrganizationLocationGrant Number
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)United States--

Revision History 

  • Version 1.0: 2020-02-05
    Type: Initial release