8UUA image
Deposition Date 2023-10-31
Release Date 2024-02-28
Last Version Date 2024-05-08
Entry Detail
PDB ID:
8UUA
Keywords:
Title:
Cryo-EM structure of the Listeria innocua 50S ribosomal subunit in complex with HflXr (structure III)
Biological Source:
Method Details:
Experimental Method:
Resolution:
2.70 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL29
Gene (Uniprot):rpmC
Chain IDs:W (auth: 1)
Chain Length:63
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL30
Gene (Uniprot):rpmD
Chain IDs:X (auth: 2)
Chain Length:59
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL31B
Gene (Uniprot):rpsU
Chain IDs:Y (auth: 3)
Chain Length:81
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL32
Gene (Uniprot):rpmF
Chain IDs:Z (auth: 4)
Chain Length:57
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL33
Gene (Uniprot):rpmG
Chain IDs:AA (auth: 5)
Chain Length:49
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL34
Gene (Uniprot):rpmH
Chain IDs:BA (auth: 6)
Chain Length:44
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL35
Gene (Uniprot):rpmI
Chain IDs:CA (auth: 7)
Chain Length:66
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL36
Gene (Uniprot):rpmJ
Chain IDs:DA (auth: 8)
Chain Length:37
Number of Molecules:1
Biological Source:Listeria innocua
Polymer Type:polyribonucleotide
Molecule:23S Ribosomal RNA
Chain IDs:B (auth: A)
Chain Length:2932
Number of Molecules:1
Biological Source:Listeria innocua
Polymer Type:polyribonucleotide
Molecule:5S Ribosomal RNA
Chain IDs:C (auth: B)
Chain Length:116
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL2
Gene (Uniprot):rplB
Chain IDs:D (auth: C)
Chain Length:277
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL3
Gene (Uniprot):rplC
Chain IDs:E (auth: D)
Chain Length:209
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL4
Gene (Uniprot):rplD
Chain IDs:F (auth: E)
Chain Length:207
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL5
Gene (Uniprot):rplE
Chain IDs:G (auth: F)
Chain Length:179
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL6
Gene (Uniprot):rplF
Chain IDs:H (auth: G)
Chain Length:178
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL13
Gene (Uniprot):rplM
Chain IDs:I (auth: L)
Chain Length:145
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL14
Gene (Uniprot):rplN
Chain IDs:J (auth: M)
Chain Length:122
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL15
Gene (Uniprot):rplO
Chain IDs:K (auth: N)
Chain Length:146
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL16
Gene (Uniprot):rplP
Chain IDs:L (auth: O)
Chain Length:144
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL17
Chain IDs:M (auth: P)
Chain Length:135
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL18
Gene (Uniprot):rplR
Chain IDs:N (auth: Q)
Chain Length:119
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL19
Gene (Uniprot):rplS
Chain IDs:O (auth: R)
Chain Length:114
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL20
Gene (Uniprot):rplT
Chain IDs:P (auth: S)
Chain Length:119
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL21
Gene (Uniprot):rplU
Chain IDs:Q (auth: T)
Chain Length:102
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL22
Gene (Uniprot):rplV
Chain IDs:R (auth: U)
Chain Length:118
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL23
Gene (Uniprot):rplW
Chain IDs:S (auth: V)
Chain Length:94
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL24
Gene (Uniprot):rplX
Chain IDs:T (auth: W)
Chain Length:103
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL27
Gene (Uniprot):rpmA
Chain IDs:U (auth: Y)
Chain Length:96
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL28
Gene (Uniprot):rpmB
Chain IDs:V (auth: Z)
Chain Length:62
Number of Molecules:1
Biological Source:Listeria innocua
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:GTPase HflX
Gene (Uniprot):hflX
Chain IDs:A (auth: v)
Chain Length:94
Number of Molecules:1
Biological Source:Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)
Primary Citation
Mechanistic insights into the alternative ribosome recycling by HflXr.
Nucleic Acids Res. 52 4053 4066 (2024)
PMID: 38407413 DOI: 10.1093/nar/gkae128

Abstact

During stress conditions such as heat shock and antibiotic exposure, ribosomes stall on messenger RNAs, leading to inhibition of protein synthesis. To remobilize ribosomes, bacteria use rescue factors such as HflXr, a homolog of the conserved housekeeping GTPase HflX that catalyzes the dissociation of translationally inactive ribosomes into individual subunits. Here we use time-resolved cryo-electron microscopy to elucidate the mechanism of ribosome recycling by Listeria monocytogenes HflXr. Within the 70S ribosome, HflXr displaces helix H69 of the 50S subunit and induces long-range movements of the platform domain of the 30S subunit, disrupting inter-subunit bridges B2b, B2c, B4, B7a and B7b. Our findings unveil a unique ribosome recycling strategy by HflXr which is distinct from that mediated by RRF and EF-G. The resemblance between HflXr and housekeeping HflX suggests that the alternative ribosome recycling mechanism reported here is universal in the prokaryotic kingdom.

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Primary Citation of related structures