8R55: Bacillus subtilis MutS2-collided disome complex
Bacillus subtilis MutS2-collided disome complex (collided 70S). Determined by electron microscopy at 3.57 Å resolution. Released 17 Jan 2024.
- Method
- Electron microscopy
- Resolution
- 3.57 Å
- Organism
- Bacillus subtilis
- Chains
- 53
- Atoms
- 143,867
- Mol. weight
- 2241.42 kDa
- Released
- 17 Jan 2024
Explore 8R55 in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
8R55 contains 207 α-helices and 307 β-strands across 47 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.
Chain 0: 1 helix, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 10-17 | 8 | |
| β-strand | 27-29 | 3 | 1 |
| β-strand | 36-38 | 3 | 1 |
| β-strand | 48-49 | 2 | 2 |
| β-strand | 52-53 | 2 | 2 |
Chain 1: 0 helices, 5 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 2-6 | 5 | 6 |
| β-strand | 7-9 | 3 | 7 |
| β-strand | 18-22 | 5 | 6 |
| β-strand | 32-36 | 5 | 7 |
| β-strand | 41-47 | 7 | 7 |
Chain 2: 3 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 9-16 | 8 | |
| α-helix | 18-23 | 6 | |
| α-helix | 25-37 | 13 | |
Chain 3: 6 helices, 3 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 3-5 | 3 | |
| α-helix | 8-11 | 4 | |
| β-strand | 15-16 | 2 | 8 |
| α-helix | 18-20 | 3 | |
| β-strand | 22-24 | 3 | 8 |
| α-helix | 38-45 | 8 | |
| β-strand | 48-49 | 2 | 8 |
| α-helix | 52-58 | 7 | |
| α-helix | 59-62 | 4 | |
Chain 4: 1 helix, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 2-4 | 3 | 9 |
| β-strand | 15-19 | 5 | 9 |
| β-strand | 22-26 | 5 | 9 |
| α-helix | 30-32 | 3 | |
| β-strand | 34-36 | 3 | 9 |
Chain 6: 1 helix, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 7-8 | 2 | |
| β-strand | 10-11 | 2 | 18 |
| β-strand | 13-16 | 4 | 19 |
| β-strand | 25-26 | 2 | 18 |
| β-strand | 30-33 | 4 | 19 |
Chain a: 6 helices, 12 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 4-16 | 13 | 20 |
| β-strand | 22-29 | 8 | 20 |
| α-helix | 31-33 | 3 | |
| β-strand | 34-39 | 6 | 21 |
| α-helix | 41-44 | 4 | |
| β-strand | 48-52 | 5 | 21 |
| α-helix | 63-69 | 7 | |
| β-strand | 80-84 | 5 | 21 |
| β-strand | 96 | 1 | 21 |
| β-strand | 107-112 | 6 | 20 |
| α-helix | 113-116 | 4 | |
| β-strand | 118-120 | 3 | 22 |
| α-helix | 122-126 | 5 | |
| α-helix | 154-155 | 2 | |
| β-strand | 162-164 | 3 | 22 |
| β-strand | 169-180 | 12 | 20 |
| β-strand | 185-189 | 5 | 20 |
| β-strand | 199-204 | 6 | 20 |
Chain b: 10 helices, 10 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 3-7 | 5 | 23 |
| β-strand | 13-18 | 6 | 23 |
| α-helix | 21-24 | 4 | |
| α-helix | 27-28 | 2 | |
| α-helix | 30-44 | 15 | |
| β-strand | 53 | 1 | 24 |
| α-helix | 54-56 | 3 | |
| α-helix | 73-74 | 2 | |
| β-strand | 80 | 1 | 25 |
| β-strand | 86 | 1 | 25 |
| β-strand | 88 | 1 | 24 |
| α-helix | 103-120 | 18 | |
| β-strand | 123-126 | 4 | 23 |
| α-helix | 136-146 | 11 | |
| β-strand | 152-154 | 3 | 23 |
| α-helix | 160-167 | 8 | |
| β-strand | 173-175 | 3 | 23 |
| α-helix | 184-188 | 5 | |
| β-strand | 192-194 | 3 | 23 |
| α-helix | 196-205 | 10 | |
39 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| 50S ribosomal protein L32 | 0 | protein | 59 | Bacillus subtilis | O34687 (AlphaFold model) |
| Large ribosomal subunit protein bL33 | 1 | protein | 48 | Bacillus subtilis | P56849 (AlphaFold model) |
| Large ribosomal subunit protein bL34 | 2 | protein | 44 | Bacillus subtilis | P05647 (AlphaFold model) |
| Large ribosomal subunit protein bL35 | 3 | protein | 66 | Bacillus subtilis | P55874 (AlphaFold model) |
| 50S ribosomal protein L36 | 4 | protein | 37 | Bacillus subtilis | P20278 |
| Large ribosomal subunit protein bL31 | 6 | protein | 64 | Bacillus subtilis | Q03223 |
| tRNA (73-mer) | 7 | RNA | 73 | Bacillus subtilis | |
| 16S rRNA (1533-mer) | A | RNA | 1533 | Bacillus subtilis | |
| 30S ribosomal protein S2 | B | protein | 246 | Bacillus subtilis | P21464 |
| 30S ribosomal protein S3 | C | protein | 218 | Bacillus subtilis | P21465 |
| 30S ribosomal protein S4 | D | protein | 200 | Bacillus subtilis | P21466 |
| 30S ribosomal protein S5 | E | protein | 166 | Bacillus subtilis | P21467 |
41 more molecules are not listed.
Sequence of entity 1 (0), FASTA
>8R55_1 50S ribosomal protein L32 (chains 0)
MAVPFRRTSKMKKRLRRTHFKLNVPGMTECPSCGEMKLSHRVCKACGSYNGKDINVKSN
Sequence of entity 2 (1), FASTA
>8R55_2 Large ribosomal subunit protein bL33 (chains 1)
MRVNITLACTECGERNYISKKNKRNNPDRVEFKKYCPRDKKSTLHRET
Sequence of entity 3 (2), FASTA
>8R55_3 Large ribosomal subunit protein bL34 (chains 2)
MKRTFQPNNRKRSKVHGFRSRMSSKNGRLVLARRRRKGRKVLSA
Sequence of entity 4 (3), FASTA
>8R55_4 Large ribosomal subunit protein bL35 (chains 3)
MPKMKTHRGSAKRFKKTGSGKLKRSHAYTSHLFANKSQKQKRKLRKSSVVSAGDFKRIKQ
MLANIK
Sequence of entity 5 (4), FASTA
>8R55_5 50S ribosomal protein L36 (chains 4)
MKVRPSVKPICEKCKVIRRKGKVMVICENPKHKQKQG
Sequence of entity 6 (6), FASTA
>8R55_6 Large ribosomal subunit protein bL31 (chains 6)
MKAGIHPNFKKATVKCACGNEFETGSVKEEVRVEICSECHPFYTGRQKFASADGRVDRFN
KKYG
Sequence of entity 7 (7), FASTA
>8R55_7 tRNA (73-MER) (chains 7)
GCGCGGAUAGCUCAGUCGGUAGAGCAGGGGAUUGAAAAUCCCCGUGUCCUUGGUUCGAUU
CCGAGUCCGCGCA
Sequence of entity 8 (A), FASTA
>8R55_8 16S rRNA (1533-MER) (chains A)
GGAGAGUUUGAUCCUGGCUCAGGACGAACGCUGGCGGCGUGCCUAAUACAUGCAAGUCGA
GCGGACAGAUGGGAGCUUGCUCCCUGAUGUUAGCGGCGGACGGGUGAGUAACACGUGGGU
AACCUGCCUGUAAGACUGGGAUAACUCCGGGAAACCGGGGCUAAUACCGGAUGGUUGUUU
GAACCGCAUGGUUCAAACAUAAAAGGUGGCUUCGGCUACCACUUACAGAUGGACCCGCGG
CGCAUUAGCUAGUUGGUGAGGUAACGGCUCACCAAGGCGACGAUGCGUAGCCGACCUGAG
AGGGUGAUCGGCCACACUGGGACUGAGACACGGCCCAGACUCCUACGGGAGGCAGCAGUA
GGGAAUCUUCCGCAAUGGACGAAAGUCUGACGGAGCAACGCCGCGUGAGUGAUGAAGGUU
UUCGGAUCGUAAAGCUCUGUUGUUAGGGAAGAACAAGUGCCGUUCGAAUAGGGCGGUACC
UUGACGGUACCUAACCAGAAAGCCACGGCUAACUACGUGCCAGCAGCCGCGGUAAUACGU
AGGUGGCAAGCGUUGUCCGGAAUUAUUGGGCGUAAAGGGCUCGCAGGCGGUUUCUUAAGU
CUGAUGUGAAAGCCCCCGGCUCAACCGGGGAGGGUCAUUGGAAACUGGGGAACUUGAGUG
CAGAAGAGGAGAGUGGAAUUCCACGUGUAGCGGUGAAAUGCGUAGAGAUGUGGAGGAACA
CCAGUGGCGAAGGCGACUCUCUGGUCUGUAACUGACGCUGAGGAGCGAAAGCGUGGGGAG
CGAACAGGAUUAGAUACCCUGGUAGUCCACGCCGUAAACGAUGAGUGCUAAGUGUUAGGG
GGUUUCCGCCCCUUAGUGCUGCAGCUAACGCAUUAAGCACUCCGCCUGGGGAGUACGGUC
GCAAGACUGAAACUCAAAGGAAUUGACGGGGGCCCGCACAAGCGGUGGAGCAUGUGGUUU
AAUUCGAAGCAACGCGAAGAACCUUACCAGGUCUUGACAUCCUCUGACAAUCCUAGAGAU
AGGACGUCCCCUUCGGGGGCAGAGUGACAGGUGGUGCAUGGUUGUCGUCAGCUCGUGUCG
UGAGAUGUUGGGUUAAGUCCCGCAACGAGCGCAACCCUUGAUCUUAGUUGCCAGCAUUCA
GUUGGGCACUCUAAGGUGACUGCCGGUGACAAACCGGAGGAAGGUGGGGAUGACGUCAAA
UCAUCAUGCCCCUUAUGACCUGGGCUACACACGUGCUACAAUGGACAGAACAAAGGGCAG
CGAAACCGCGAGGUUAAGCCAAUCCCACAAAUCUGUUCUCAGUUCGGAUCGCAGUCUGCA
ACUCGACUGCGUGAAGCUGGAAUCGCUAGUAAUCGCGGAUCAGCAUGCCGCGGUGAAUAC
GUUCCCGGGCCUUGUACACACCGCCCGUCACACCACGAGAGUUUGUAACACCCGAAGUCG
GUGAGGUAACCUUUUAGGAGCCAGCCGCCGAAGGUGGGACAGAUGAUUGGGGUGAAGUCG
UAACAAGGUAGCCGUAUCGGAAGGUGCGGCUGG
Sequence of entity 9 (B), FASTA
>8R55_9 30S ribosomal protein S2 (chains B)
MSVISMKQLLEAGVHFGHQTRRWNPKMKRYIFTERNGIYIIDLQKTVKKVEEAYNFTKNL
AAEGGKILFVGTKKQAQDSVKEEAQRSGMYYVNQRWLGGTLTNFETIQKRIKRLKDIEKM
QENGTFDVLPKKEVVQLKKELERLEKFLGGIKDMKDLPDALFIIDPRKERIAVAEARKLN
IPIIGIVDTNCDPDEIDVVIPANDDAIRAVKLLTSKMADAILEAKQGEEEAEVAEETAPE
TETTTA
Sequence of entity 10 (C), FASTA
>8R55_10 30S ribosomal protein S3 (chains C)
MGQKVNPVGLRIGVIRDWESKWYAGKDYADFLHEDLKIREYISKRLSDASVSKVEIERAA
NRVNITIHTAKPGMVIGKGGSEVEALRKALNSLTGKRVHINILEIKRADLDAQLVADNIA
RQLENRVSFRRAQKQQIQRTMRAGAQGVKTMVSGRLGGADIARSEYYSEGTVPLHTLRAD
IDYATSEADTTYGKLGVKVWIYRGEVLPTKKKTEEGGK
Sequence of entity 11 (D), FASTA
>8R55_11 30S ribosomal protein S4 (chains D)
MARYTGPSWKLSRRLGISLSGTGKELEKRPYAPGPHGPGQRKKLSEYGLQLQEKQKLRHM
YGVNERQFRTLFDKAGKLAGKHGENFMILLDSRLDNVVYKLGLARTRRQARQLVNHGHIL
VDGSRVDIPSYLVKPGQTIGVREKSRNLSIIKESVEVNNFVPEYLTFDAEKLEGTFTRLP
ERSELAPEINEALIVEFYSR
Sequence of entity 12 (E), FASTA
>8R55_12 30S ribosomal protein S5 (chains E)
MRRIDPSKLELEERLVTVNRVAKVVKGGRRFRFAALVVVGDKNGHVGFGTGKAQEVPEAI
RKAVEDAKKNLIEVPMVGTTIPHEIIGRFGAGNILLKPASEGTGVIAGGPVRAVLELAGV
ADILSKSLGSNTPINMIRATLQGLSELKRAEDVAKLRGKSVEELLG
Primary citation
B. subtilis MutS2 splits stalled ribosomes into subunits without mRNA cleavage. Park, E.N., Mackens-Kiani, T., Berhane, R. et al. EMBO J (2024) 43:484-506. DOI 10.1038/s44318-023-00010-3 · PubMed
Other PDB entries of the same protein (UniProt O34687 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 8S1P 1.96 Å, YlmH bound to PtRNA-50S
- 8QCQ 2.3 Å, B. subtilis ApdA-stalled ribosomal complex
- 9FY1 2.3 Å, Structure of CliM-stalled Bacillus subtilis 70S ribosome with release factor bound in…
- 9FY2 2.3 Å, Structure of CliM-stalled Bacillus subtilis 70S ribosome with empty A-site
- 9FY3 2.8 Å, Structure of CliM-stalled Bacillus subtilis 70S ribosome with tRNA-Tyr in the A-site
- 7AS8 2.9 Å, Bacillus subtilis ribosome quality control complex state B. Ribosomal 50S subunit with…
- 8BUU 2.9 Å, ARE-ABCF VmlR2 bound to a 70S ribosome
- 7AQC 2.99 Å, Structure of the bacterial RQC complex (Decoding State)
- 7SAE 3.0 Å, 44SR70P Class1 ribosomal particle
- 6TNN 3.07 Å, Mini-RNase III (Mini-III) bound to 50S ribosome with precursor 23S rRNA
- 6TPQ 3.07 Å, RNase M5 bound to 50S ribosome with precursor 5S rRNA
- 6HA1 3.1 Å, Cryo-EM structure of a 70S Bacillus subtilis ribosome translating the ErmD leader…
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