9SS4: Pre-50S ribosomal subunit in rimM-KO with RsfS
pre-50S ribosomal subunit in rimM-KO with RsfS (-H68). Determined by electron microscopy at 2.7 Å resolution. Released 4 Feb 2026.
- Method
- Electron microscopy
- Resolution
- 2.7 Å
- Organism
- Escherichia coli
- Chains
- 35
- Atoms
- 91,554
- Mol. weight
- 1411.1 kDa
- Released
- 4 Feb 2026
Explore 9SS4 in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
9SS4 contains 138 α-helices and 219 β-strands across 33 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 B0: 0 helices, 8 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 18-19 | 2 | 1 |
| β-strand | 26-27 | 2 | 2 |
| β-strand | 32-35 | 4 | 1 |
| β-strand | 41-43 | 3 | 2 |
| β-strand | 47-49 | 3 | 1 |
| β-strand | 54-57 | 4 | 1 |
| β-strand | 61-66 | 6 | 2 |
| β-strand | 74-79 | 6 | 2 |
Chain B1: 3 helices, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 12-15 | 4 | 3 |
| β-strand | 25-28 | 4 | 3 |
| α-helix | 29-30 | 2 | |
| β-strand | 32-39 | 8 | 4 |
| β-strand | 44-51 | 8 | 4 |
| α-helix | 52-60 | 9 | |
| α-helix | 63-73 | 11 | |
Chain B2: 5 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 2-7 | 6 | |
| α-helix | 10-19 | 10 | |
| α-helix | 20-26 | 7 | |
| α-helix | 27-34 | 8 | |
| α-helix | 42-60 | 19 | |
Chain B3: 2 helices, 3 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 3-8 | 6 | 10 |
| α-helix | 17-26 | 10 | |
| β-strand | 34-38 | 5 | 10 |
| α-helix | 41-49 | 9 | |
| β-strand | 54-57 | 4 | 10 |
Chain B4: 2 helices, 2 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 7-8 | 2 | |
| β-strand | 10-15 | 6 | 13 |
| β-strand | 21-26 | 6 | 13 |
| α-helix | 42-45 | 4 | |
Chain B5: 1 helix, 5 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 9-16 | 8 | |
| β-strand | 28-29 | 2 | 20 |
| β-strand | 36-37 | 2 | 20 |
| β-strand | 41 | 1 | 21 |
| β-strand | 47-48 | 2 | 22 |
| β-strand | 51-52 | 2 | 22 |
Chain B6: 0 helices, 5 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 6-12 | 7 | 24 |
| β-strand | 19-24 | 6 | 24 |
| β-strand | 36-39 | 4 | 25 |
| β-strand | 44-47 | 4 | 25 |
| β-strand | 48-51 | 4 | 24 |
Chain B7: 3 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 9-16 | 8 | |
| α-helix | 18-21 | 4 | |
| α-helix | 25-36 | 12 | |
25 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 |
|---|
| Large ribosomal subunit protein bL27 | B0 | protein | 85 | Escherichia coli | P0A7L8 (AlphaFold model) |
| Large ribosomal subunit protein bL28 | B1 | protein | 78 | Escherichia coli | P0A7M2 (AlphaFold model) |
| Large ribosomal subunit protein uL29 | B2 | protein | 63 | Escherichia coli | P0A7M6 (AlphaFold model) |
| Large ribosomal subunit protein uL30 | B3 | protein | 58 | Escherichia coli | P0AG51 (AlphaFold model) |
| Large ribosomal subunit protein bL31A | B4 | protein | 70 | Escherichia coli | P0A7M9 |
| Large ribosomal subunit protein bL32 | B5 | protein | 57 | Escherichia coli | P0A7N4 |
| Large ribosomal subunit protein bL33 | B6 | protein | 55 | Escherichia coli | P0A7N9 |
| Large ribosomal subunit protein bL34 | B7 | protein | 46 | Escherichia coli | P0A7P5 |
| Large ribosomal subunit protein bL35 | B8 | protein | 65 | Escherichia coli | P0A7Q1 |
| Large ribosomal subunit protein bL36A | B9 | protein | 38 | Escherichia coli | P0A7Q6 |
| Large ribosomal subunit protein uL1 | BA | protein | 234 | Escherichia coli | P0A7L0 |
| Large ribosomal subunit protein uL2 | BB | protein | 273 | Escherichia coli | P60422 |
23 more molecules are not listed.
Sequence of entity 1 (B0), FASTA
>9SS4_1 Large ribosomal subunit protein bL27 (chains B0)
MAHKKAGGSTRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLF
AKADGKVKFEVKGPKNRKFISIEAE
Sequence of entity 2 (B1), FASTA
>9SS4_2 Large ribosomal subunit protein bL28 (chains B1)
MSRVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRVSAKGMRVID
KKGIDTVLAELRARGEKY
Sequence of entity 3 (B2), FASTA
>9SS4_3 Large ribosomal subunit protein uL29 (chains B2)
MKAKELREKSVEELNTELLNLLREQFNLRMQAASGQLQQSHLLKQVRRDVARVKTLLNEK
AGA
Sequence of entity 4 (B3), FASTA
>9SS4_4 Large ribosomal subunit protein uL30 (chains B3)
AKTIKITQTRSAIGRLPKHKATLLGLGLRRIGHTVEREDTPAIRGMINAVSFMVKVEE
Sequence of entity 5 (B4), FASTA
>9SS4_5 Large ribosomal subunit protein bL31A (chains B4)
MKKDIHPKYEEITASCSCGNVMKIRSTVGHDLNLDVCSKCHPFFTGKQRDVATGGRVDRF
NKRFNIPGSK
Sequence of entity 6 (B5), FASTA
>9SS4_6 Large ribosomal subunit protein bL32 (chains B5)
MAVQQNKPTRSKRGMRRSHDALTAVTSLSVDKTSGEKHLRHHITADGYYRGRKVIAK
Sequence of entity 7 (B6), FASTA
>9SS4_7 Large ribosomal subunit protein bL33 (chains B6)
MAKGIREKIKLVSSAGTGHFYTTTKNKRTKPEKLELKKFDPVVRQHVIYKEAKIK
Sequence of entity 8 (B7), FASTA
>9SS4_8 Large ribosomal subunit protein bL34 (chains B7)
MKRTFQPSVLKRNRSHGFRARMATKNGRQVLARRRAKGRARLTVSK
Sequence of entity 9 (B8), FASTA
>9SS4_9 Large ribosomal subunit protein bL35 (chains B8)
MPKIKTVRGAAKRFKKTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVSKGDLGLVIA
CLPYA
Sequence of entity 10 (B9), FASTA
>9SS4_10 Large ribosomal subunit protein bL36A (chains B9)
MKVRASVKKLCRNCKIVKRDGVIRVICSAEPKHKQRQG
Sequence of entity 11 (BA), FASTA
>9SS4_11 Large ribosomal subunit protein uL1 (chains BA)
MAKLTKRMRVIREKVDATKQYDINEAIALLKELATAKFVESVDVAVNLGIDARKSDQNVR
GATVLPHGTGRSVRVAVFTQGANAEAAKAAGAELVGMEDLADQIKKGEMNFDVVIASPDA
MRVVGQLGQVLGPRGLMPNPKVGTVTPNVAEAVKNAKAGQVRYRNDKNGIIHTTIGKVDF
DADKLKENLEALLVALKKAKPTQAKGVYIKKVSISTTMGAGVAVDQAGLSASVN
Sequence of entity 12 (BB), FASTA
>9SS4_12 Large ribosomal subunit protein uL2 (chains BB)
MAVVKCKPTSPGRRHVVKVVNPELHKGKPFAPLLEKNSKSGGRNNNGRITTRHIGGGHKQ
AYRIVDFKRNKDGIPAVVERLEYDPNRSANIALVLYKDGERRYILAPKGLKAGDQIQSGV
DAAIKPGNTLPMRNIPVGSTVHNVEMKPGKGGQLARSAGTYVQIVARDGAYVTLRLRSGE
MRKVEADCRATLGEVGNAEHMLRVLGKAGAARWRGVRPTVRGTAMNPVDHPHGGGEGRNF
GKHPVTPWGVQTKGKKTRSNKRTDKFIVRRRSK
Primary citation
Mechanistic insights into E. coli recovery from growth arrest. Hassan, A.H., Nakano, Y., Gamper, H. et al. Nat Commun (2026) 17. DOI 10.1038/s41467-026-71781-6 · PubMed
Other PDB entries of the same protein (UniProt P0A7L8 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 8B0X 1.55 Å, Translating 70S ribosome in the unrotated state (P and E, tRNAs)
- 9Q87 1.55 Å, Principles of ion binding to RNA inferred from the analysis of a 1.55 Angstrom…
- 8CGK 1.64 Å, Lincomycin and Avilamycin bound to the 50S subunit
- 8CGV 1.66 Å, Tiamulin bound to the 50S subunit
- 8CEU 1.83 Å, Retapamulin and Capreomycin bound to the 50S subunit
- 8FTO 1.85 Å, E. coli 70S ribosome with an improved MS2 tag inserted in H98
- 8CAM 1.86 Å, Evernimicin bound to the 50S subunit
- 9GHE 1.87 Å, Staphylococcus aureus FusB bound to the small subunit of the Escherichia coli 70S…
- 9T0Y 1.87 Å, E. coli 70S ribosome from delta-9 strain
- 9T6M 1.87 Å, E. coli 70S ribosome from delta-10 strain
- 9SYH 1.89 Å, E. coli 70S ribosome from deltaRlmE strain
- 9D89 1.95 Å, E. coli 50S ribosomal subunit in complex with PrAMP rumicidin-2 (focused refinement)
Browse structure collections
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