9K10 image
Deposition Date 2024-10-16
Release Date 2025-07-09
Last Version Date 2025-07-09
Entry Detail
PDB ID:
9K10
Keywords:
Title:
EF-G2 bound 50S ribosome subunit complex of M. smegmatis
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.60 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein bL37
Gene (Uniprot):MSMEG_1916
Chain IDs:A (auth: 3)
Chain Length:24
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:Translation elongation factor EF-G
Gene (Uniprot):MSMEG_6535
Chain IDs:B (auth: 5), C (auth: 6)
Chain Length:709
Number of Molecules:2
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polyribonucleotide
Molecule:23S ribosomal RNA
Chain IDs:JA (auth: A)
Chain Length:61
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polyribonucleotide
Molecule:5S ribosomal RNA
Chain IDs:D (auth: B)
Chain Length:57
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L2
Gene (Uniprot):rplB
Chain IDs:E (auth: C)
Chain Length:55
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L3
Gene (Uniprot):rplC
Chain IDs:F (auth: D)
Chain Length:217
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L4
Gene (Uniprot):rplD
Chain IDs:G (auth: E)
Chain Length:64
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L5
Gene (Uniprot):rplE
Chain IDs:H (auth: F)
Chain Length:37
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L6
Gene (Uniprot):rplF
Chain IDs:I (auth: G)
Chain Length:179
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L9
Gene (Uniprot):rplI
Chain IDs:J (auth: H)
Chain Length:151
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L10
Gene (Uniprot):rplJ
Chain IDs:K (auth: I)
Chain Length:175
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L11
Gene (Uniprot):rplK
Chain IDs:L (auth: J)
Chain Length:142
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L13
Gene (Uniprot):rplM
Chain IDs:M (auth: K)
Chain Length:147
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L14
Gene (Uniprot):rplN
Chain IDs:N (auth: L)
Chain Length:122
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L15
Gene (Uniprot):rplO
Chain IDs:O (auth: M)
Chain Length:147
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L16
Gene (Uniprot):rplP
Chain IDs:P (auth: N)
Chain Length:138
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L17
Gene (Uniprot):rplQ
Chain IDs:Q (auth: O)
Chain Length:199
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L18
Gene (Uniprot):rplR
Chain IDs:R (auth: P)
Chain Length:127
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L19
Gene (Uniprot):rplS
Chain IDs:S (auth: Q)
Chain Length:113
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L20
Gene (Uniprot):rplT
Chain IDs:T (auth: R)
Chain Length:129
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L21
Gene (Uniprot):rplU
Chain IDs:U (auth: S)
Chain Length:103
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L22
Gene (Uniprot):rplV
Chain IDs:V (auth: T)
Chain Length:153
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L23
Gene (Uniprot):rplW
Chain IDs:W (auth: U)
Chain Length:100
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL24
Gene (Uniprot):rplX
Chain IDs:X (auth: V)
Chain Length:105
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L25
Gene (Uniprot):rplY
Chain IDs:Y (auth: W)
Chain Length:215
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L27
Gene (Uniprot):rpmA
Chain IDs:Z (auth: X)
Chain Length:88
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L28
Gene (Uniprot):rpmB
Chain IDs:AA (auth: Y)
Chain Length:64
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L29
Gene (Uniprot):rpmC
Chain IDs:BA (auth: Z)
Chain Length:77
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L30
Gene (Uniprot):rpmD
Chain IDs:CA (auth: a)
Chain Length:61
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L32
Gene (Uniprot):rpmF
Chain IDs:DA (auth: b)
Chain Length:57
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L33 1
Gene (Uniprot):rpmG1
Chain IDs:EA (auth: c)
Chain Length:55
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L34
Gene (Uniprot):rpmH
Chain IDs:FA (auth: d)
Chain Length:217
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L35
Gene (Uniprot):rpmI
Chain IDs:GA (auth: e)
Chain Length:64
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L36
Gene (Uniprot):rpmJ
Chain IDs:HA (auth: f)
Chain Length:37
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L31
Gene (Uniprot):rpmE
Chain IDs:IA (auth: g)
Chain Length:179
Number of Molecules:1
Biological Source:Mycolicibacterium smegmatis MC2 155
Primary Citation
Cryo-EM structural analyses reveal a unique role for elongation factor G2 (EF-G2) in Mycobacteria.
Febs J. ? ? ? (2025)
PMID: 40569974 DOI: 10.1111/febs.70161

Abstact

The gene-encoding translation elongation factor G (EF-G) has undergone gene duplication across various bacterial species including Mycobacteria, and in mammalian mitochondria, leading to the emergence of the paralogue elongation factor G2 (EF-G2). Our study reveals that mycobacterial EF-G2, unlike EF-G1, neither participates in ribosome-recycling nor significantly contributes to overall translation, suggesting that it plays an alternative role in Mycobacteria. Remarkably, our investigation found a significant overexpression of mycobacterial EF-G2 during the stationary growth phase. Moreover, EF-G2 lacks ribosome-dependent GTPase activity, an observation consistent with previous reports. Cryo-EM analysis of the M. smegmatis 70S ribosome purified from the nutrient-starved (stationary) phase and complexed with EF-G2 unveiled the structural basis for its inability to hydrolyse GTP in a ribosome-dependent manner. Furthermore, we report an unprecedented binding mode of two EF-G2 copies on the 50S ribosomal subunit that impedes subunit association, thereby preventing the formation of active 70S ribosomes. Thus, instead of performing canonical functions, mycobacterial EF-G2 acts as a translation repressor during nutrient starvation. Altogether, our findings shed light on the multifaceted mechanisms by which EF-G2 modulates protein synthesis under nutrient-limited conditions, providing insights into adaptive strategies employed by Mycobacteria to survive in hostile environments.

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Primary Citation of related structures