8R55 image
Deposition Date 2023-11-16
Release Date 2024-01-17
Last Version Date 2024-10-23
Entry Detail
PDB ID:
8R55
Keywords:
RIBOSOME
Title:
Bacillus subtilis MutS2-collided disome complex (collided 70S)
Biological Source:
Source Organism(s):
Bacillus subtilis (Taxon ID: 1423)
Expression System(s):
Escherichia coli
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
3.57 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
8R55 validation report
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L32
Chain IDs:A (auth: 0)
Chain Length:59
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:O34687 Pfam ID:PF01783
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL33
Chain IDs:B (auth: 1)
Chain Length:48
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P56849 Pfam ID:PF00471
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL34
Chain IDs:C (auth: 2)
Chain Length:44
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P05647 Pfam ID:PF00468
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL35
Chain IDs:D (auth: 3)
Chain Length:66
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P55874 Pfam ID:PF01632
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L36
Chain IDs:E (auth: 4)
Chain Length:37
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P20278 Pfam ID:PF00444
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL31
Chain IDs:F (auth: 6)
Chain Length:64
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:Q03223 Pfam ID:PF01197
Polymer Type:polyribonucleotide
Molecule:tRNA (73-MER)
Chain IDs:G (auth: 7)
Chain Length:73
Number of Molecules:1
Biological Source:Bacillus subtilis
Polymer Type:polyribonucleotide
Molecule:16S rRNA (1533-MER)
Chain IDs:H (auth: A)
Chain Length:1533
Number of Molecules:1
Biological Source:Bacillus subtilis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S2
Chain IDs:I (auth: B)
Chain Length:205
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P21464 Pfam ID:PF00318
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S3
Chain IDs:J (auth: C)
Chain Length:218
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P21465 Pfam ID:PF07650, PF00189
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S4
Chain IDs:K (auth: D)
Chain Length:175
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P21466 Pfam ID:PF00163, PF01479
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S5
Chain IDs:L (auth: E)
Chain Length:142
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P21467 Pfam ID:PF00333, PF03719
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S6
Chain IDs:M (auth: F)
Chain Length:122
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P21468 Pfam ID:PF01250
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S7
Chain IDs:N (auth: G)
Chain Length:156
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P21469 Pfam ID:PF00177
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S8
Chain IDs:O (auth: H)
Chain Length:132
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P12879 Pfam ID:PF00410
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S9
Chain IDs:P (auth: I)
Chain Length:130
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P21470 Pfam ID:PF00380
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S10
Chain IDs:Q (auth: J)
Chain Length:138
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P21471 Pfam ID:PF00338
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S11
Chain IDs:R (auth: K)
Chain Length:131
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P04969 Pfam ID:PF00411
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S12
Chain IDs:S (auth: L)
Chain Length:138
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P21472 Pfam ID:PF00164
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S13
Chain IDs:T (auth: M)
Chain Length:121
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P20282 Pfam ID:PF00416
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S14 type Z
Chain IDs:U (auth: N)
Chain Length:117
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P12878 Pfam ID:PF00253
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S15
Chain IDs:V (auth: O)
Chain Length:89
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P21473 Pfam ID:PF00312
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S16
Chain IDs:W (auth: P)
Chain Length:90
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P21474 Pfam ID:PF00886
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S17
Chain IDs:X (auth: Q)
Chain Length:87
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P12874 Pfam ID:PF00366
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S18
Chain IDs:Y (auth: R)
Chain Length:109
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P21475 Pfam ID:PF01084
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S19
Chain IDs:Z (auth: S)
Chain Length:93
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P21476 Pfam ID:PF00203
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S20
Chain IDs:AA (auth: T)
Chain Length:88
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P21477 Pfam ID:PF01649
Polymer Type:polyribonucleotide
Molecule:tRNA (77-MER)
Chain IDs:BA (auth: U)
Chain Length:77
Number of Molecules:1
Biological Source:Bacillus subtilis
Polymer Type:polyribonucleotide
Molecule:mRNA (33-MER)
Chain IDs:CA (auth: V)
Chain Length:33
Number of Molecules:1
Biological Source:Bacillus subtilis
Polymer Type:polyribonucleotide
Molecule:23S RNA (2887-MER)
Chain IDs:ZA (auth: X)
Chain Length:2928
Number of Molecules:1
Biological Source:Bacillus subtilis
Polymer Type:polyribonucleotide
Molecule:5S rRNA (112-MER)
Chain IDs:DA (auth: Y)
Chain Length:112
Number of Molecules:1
Biological Source:Bacillus subtilis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL2
Chain IDs:EA (auth: Z)
Chain Length:785
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P42919 Pfam ID:PF00181, PF03947
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL3
Chain IDs:FA (auth: a)
Chain Length:1533
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P42920 Pfam ID:PF00297
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL4
Chain IDs:GA (auth: b)
Chain Length:205
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P42921 Pfam ID:PF00573
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL5
Chain IDs:HA (auth: c)
Chain Length:218
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P12877 Pfam ID:PF00281, PF00673
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL6
Chain IDs:IA (auth: d)
Chain Length:175
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P46898 Pfam ID:PF00347
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL13
Chain IDs:JA (auth: e)
Chain Length:142
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P70974 Pfam ID:PF00572
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L14
Chain IDs:KA (auth: f)
Chain Length:122
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P12875 Pfam ID:PF00238
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L15
Chain IDs:LA (auth: i)
Chain Length:130
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P19946 Pfam ID:PF00828
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL16
Chain IDs:MA (auth: j)
Chain Length:138
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P14577 Pfam ID:PF00252
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL17
Chain IDs:NA (auth: k)
Chain Length:131
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P20277 Pfam ID:PF01196
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L18
Chain IDs:OA (auth: l)
Chain Length:138
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P46899 Pfam ID:PF00861
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L19
Chain IDs:PA (auth: m)
Chain Length:121
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:O31742 Pfam ID:PF01245
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL20
Chain IDs:QA (auth: n)
Chain Length:117
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P55873 Pfam ID:PF00453
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL21
Chain IDs:RA (auth: o)
Chain Length:89
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P26908 Pfam ID:PF00829
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL22
Chain IDs:SA (auth: r)
Chain Length:109
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P42060 Pfam ID:PF00237
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL23
Chain IDs:TA (auth: s)
Chain Length:93
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P42924 Pfam ID:PF00276
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL24
Chain IDs:UA (auth: t)
Chain Length:88
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P0CI78 Pfam ID:PF00467, PF17136
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL27
Chain IDs:VA (auth: u)
Chain Length:77
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P05657 Pfam ID:PF01016
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein bL28
Chain IDs:WA (auth: v)
Chain Length:33
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P37807 Pfam ID:PF00830
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL29
Chain IDs:XA (auth: w)
Chain Length:65
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P12873 Pfam ID:PF00831
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL30
Chain IDs:YA (auth: x)
Chain Length:2928
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P19947 Pfam ID:PF00327
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Endonuclease MutS2
Chain IDs:AB (auth: z)
Chain Length:785
Number of Molecules:1
Biological Source:Bacillus subtilis
UniProt ID:P94545 Pfam ID:PF00488, PF20297, PF01713
Ligand Molecules
NA
Primary Citation
B. subtilis MutS2 splits stalled ribosomes into subunits without mRNA cleavage.
Embo J. 43 484 506 (2024)
PMID: 38177497 DOI: 10.1038/s44318-023-00010-3

Abstact

Stalled ribosomes are rescued by pathways that recycle the ribosome and target the nascent polypeptide for degradation. In E. coli, these pathways are triggered by ribosome collisions through the recruitment of SmrB, a nuclease that cleaves the mRNA. In B. subtilis, the related protein MutS2 was recently implicated in ribosome rescue. Here we show that MutS2 is recruited to collisions by its SMR and KOW domains, and we reveal the interaction of these domains with collided ribosomes by cryo-EM. Using a combination of in vivo and in vitro approaches, we show that MutS2 uses its ABC ATPase activity to split ribosomes, targeting the nascent peptide for degradation through the ribosome quality control pathway. However, unlike SmrB, which cleaves mRNA in E. coli, we see no evidence that MutS2 mediates mRNA cleavage or promotes ribosome rescue by tmRNA. These findings clarify the biochemical and cellular roles of MutS2 in ribosome rescue in B. subtilis and raise questions about how these pathways function differently in diverse bacteria.

Legend

Protein

Chemical

Disease

Primary Citation of related structures
8QPP
Feedback Form
Name
Email
Institute
Feedback