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- EMDB-0104: T. thermophilus hibernating 100S ribosome (ice) -

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Basic information

Entry
Database: EMDB / ID: EMD-0104
TitleT. thermophilus hibernating 100S ribosome (ice)
Map data
SampleThermus thermophilus 100S hibernating ribosome (ice)
  • Ribosome
  • (Ribosome hibernation promoting ...) x 3
  • (50S ribosomal protein ...) x 29
  • (nucleic-acidNucleic acid) x 3
  • (30S ribosomal protein ...) x 20
Function / homology
Function and homology information


primary metabolic process / small ribosomal subunit / large ribosomal subunit / ribosomal large subunit assembly / 5S rRNA binding / regulation of translation / transferase activity / tRNA binding / ribosome / rRNA binding ...primary metabolic process / small ribosomal subunit / large ribosomal subunit / ribosomal large subunit assembly / 5S rRNA binding / regulation of translation / transferase activity / tRNA binding / ribosome / rRNA binding / structural constituent of ribosome / translation / mRNA binding / zinc ion binding / metal ion binding / cytoplasm
Ribosomal protein S11, bacterial-type / Ribosomal protein L25, beta domain / Ribosomal protein L3, conserved site / Ribosomal protein L3, bacterial/organelle-type / Ribosomal protein L14P, conserved site / Ribosomal protein S17, conserved site / Ribosomal protein S13, bacterial-type / Ribosomal protein L30, ferredoxin-like fold domain superfamily / 30S ribosomal protein S17 / Ribosomal protein L6, alpha-beta domain ...Ribosomal protein S11, bacterial-type / Ribosomal protein L25, beta domain / Ribosomal protein L3, conserved site / Ribosomal protein L3, bacterial/organelle-type / Ribosomal protein L14P, conserved site / Ribosomal protein S17, conserved site / Ribosomal protein S13, bacterial-type / Ribosomal protein L30, ferredoxin-like fold domain superfamily / 30S ribosomal protein S17 / Ribosomal protein L6, alpha-beta domain / Ribosomal protein L25/Gln-tRNA synthetase, N-terminal / Ribosomal protein L9, C-terminal / Ribosomal protein S3, conserved site / Ribosomal protein L9, N-terminal / Ribosomal protein S5 domain 2-type fold / Ribosomal protein S9, conserved site / Ribosomal protein L9, bacteria/chloroplast / Ribosomal protein S7, conserved site / Ribosomal protein S6, plastid/chloroplast / Ribosomal protein S6, conserved site / Ribosomal protein L5, conserved site / Ribosomal protein L5, bacterial-type / Ribosomal protein L6, bacterial-type / Ribosomal protein S18, conserved site / Ribosomal protein L34, conserved site / Ribosomal S11, conserved site / Translation elongation factor EF1B/ribosomal protein S6 / Ribosomal protein S5 domain 2-type fold, subgroup / Ribosomal protein L2, domain 2 / Ribosomal protein L2, domain 3 / K homology domain-like, alpha/beta / Ribosomal protein L30, ferredoxin-like fold domain / Ribosomal protein L10e/L16 / Ribosomal protein L30, conserved site / Ribosomal protein S4, conserved site / Ribosomal protein S2, conserved site / Ribosomal protein S14, conserved site / Ribosomal protein S5, N-terminal, conserved site / Ribosomal protein L29, conserved site / Ribosomal protein L19, conserved site / Ribosomal protein L22/L17, conserved site / Ribosomal protein L27, conserved site / Ribosomal protein L33, conserved site / Ribosomal protein L35, conserved site / Ribosomal protein S10, conserved site / Ribosomal protein S13, conserved site / Ribosomal protein S19 conserved site / Ribosomal protein L18e/L15P / Ribosomal protein L25/L23 / Ribosomal L18e/L15P superfamily / Sigma 54 modulation/S30EA ribosomal protein, C-terminal / Ribosome hibernation promoting factor, long/plastid / L28p-like / Ribosomal protein L20, C-terminal / Ribosomal protein L36 superfamily / Ribosomal protein S6 superfamily / Ribosomal protein S8 superfamily / Ribosomal protein L29/L35 superfamily / L21-like superfamily / Ribosomal protein L17 superfamily / Ribosomal protein L5, N-terminal / Ribosomal protein L22/L17 superfamily / Ribosomal protein S3, C-terminal domain superfamily / Ribosomal protein S20 superfamily / Ribosome hibernation promotion factor-like / Ribosomal protein L6, alpha-beta domain superfamily / Ribosomal protein L9, C-terminal domain superfamily / Ribosomal protein S7 domain superfamily / Ribosomal protein S10 domain superfamily / Ribosomal protein L14 superfamily / 30S ribosomal protein Thx / Ribosomal protein L5, C-terminal / Ribosomal protein L35 / Ribosomal protein S19, superfamily / Ribosomal Proteins L2, RNA binding domain / Ribosomal protein L2, C-terminal / Ribosomal protein L2, conserved site / Ribosomal protein S4/S9 / Ribosomal protein L5 domain superfamily / Ribosomal protein S9, bacterial/plastid / Ribosomal protein S14, type Z / Ribosomal protein L13, conserved site / Ribosomal protein L4 domain superfamily / Ribosomal protein S2, flavodoxin-like domain superfamily / Ribosomal protein L15 / Ribosomal protein S7 domain / Ribosomal protein S16 domain superfamily / Ribosomal protein L28/L24 / 30s ribosomal protein S13, C-terminal / Ribosomal protein S10 domain / Ribosomal protein L31 type A / Ribosomal protein L21-like / Ribosomal protein L25 / 30S ribosomal protein / Ribosomal protein S5, N-terminal / 50S ribosomal protein uL4 / Ribosomal protein L13 superfamily / Ribosomal protein S3, C-terminal / Ribosomal protein S8 / Ribosomal protein L6
50S ribosomal protein L30 / 50S ribosomal protein L23 / 30S ribosomal protein S19 / 50S ribosomal protein L22 / 50S ribosomal protein L29 / 50S ribosomal protein L14 / 50S ribosomal protein L24 / 50S ribosomal protein L5 / 50S ribosomal protein L18 / 30S ribosomal protein S5 ...50S ribosomal protein L30 / 50S ribosomal protein L23 / 30S ribosomal protein S19 / 50S ribosomal protein L22 / 50S ribosomal protein L29 / 50S ribosomal protein L14 / 50S ribosomal protein L24 / 50S ribosomal protein L5 / 50S ribosomal protein L18 / 30S ribosomal protein S5 / 30S ribosomal protein S15 / 50S ribosomal protein L15 / 50S ribosomal protein L36 / 50S ribosomal protein L25 / 30S ribosomal protein Thx / Ribosome hibernation promoting factor / 50S ribosomal protein L3 / 50S ribosomal protein L31 / 30S ribosomal protein S16 / 50S ribosomal protein L35 / 30S ribosomal protein S6 / 30S ribosomal protein S18 / 50S ribosomal protein L9 / 50S ribosomal protein L4 / 30S ribosomal protein S9 / 30S ribosomal protein S10 / 50S ribosomal protein L20 / 30S ribosomal protein S14 type Z / 30S ribosomal protein S17 / 50S ribosomal protein L6 / 30S ribosomal protein S8 / 30S ribosomal protein S7 / 50S ribosomal protein L33 / 50S ribosomal protein L2 / 50S ribosomal protein L13 / 50S ribosomal protein L16 / 50S ribosomal protein L19 / 50S ribosomal protein L21 / 30S ribosomal protein S12 / 50S ribosomal protein L27 / 50S ribosomal protein L28 / 50S ribosomal protein L32 / 50S ribosomal protein L34 / 30S ribosomal protein S2 / 30S ribosomal protein S3 / 30S ribosomal protein S4 / 30S ribosomal protein S11 / 30S ribosomal protein S13 / 30S ribosomal protein S20 / 50S ribosomal protein L17
Biological speciesThermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Methodsingle particle reconstruction / cryo EM / Resolution: 4.57 Å
AuthorsFlygaard RK / Jenner LB
CitationJournal: Nat Commun / Year: 2018
Title: Cryo-EM structure of the hibernating Thermus thermophilus 100S ribosome reveals a protein-mediated dimerization mechanism.
Authors: Rasmus Kock Flygaard / Niels Boegholm / Marat Yusupov / Lasse B Jenner /
Abstract: In response to cellular stresses bacteria conserve energy by dimerization of ribosomes into inactive hibernating 100S ribosome particles. Ribosome dimerization in Thermus thermophilus is facilitated ...In response to cellular stresses bacteria conserve energy by dimerization of ribosomes into inactive hibernating 100S ribosome particles. Ribosome dimerization in Thermus thermophilus is facilitated by hibernation-promoting factor (TtHPF). In this study we demonstrate high sensitivity of Tt100S formation to the levels of TtHPF and show that a 1:1 ratio leads to optimal dimerization. We report structures of the T. thermophilus 100S ribosome determined by cryo-electron microscopy to average resolutions of 4.13 Å and 4.57 Å. In addition, we present a 3.28 Å high-resolution cryo-EM reconstruction of a 70S ribosome from a hibernating ribosome dimer and reveal a role for the linker region connecting the TtHPF N- and C-terminal domains in translation inhibition by preventing Shine-Dalgarno duplex formation. Our work demonstrates that species-specific differences in the dimerization interface govern the overall conformation of the 100S ribosome particle and that for Thermus thermophilus no ribosome-ribosome interactions are involved in the interface.
Validation ReportPDB-ID: 6gzx

SummaryFull reportAbout validation report
History
DepositionJul 5, 2018-
Header (metadata) releaseAug 22, 2018-
Map releaseOct 24, 2018-
UpdateOct 24, 2018-
Current statusOct 24, 2018Processing site: PDBe / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 2.3
  • Imaged by UCSF Chimera
  • Download
  • Surface view colored by cylindrical radius
  • Surface level: 2.3
  • Imaged by UCSF Chimera
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  • Surface view with fitted model
  • Atomic models: : PDB-6gzx
  • Surface level: 2.3
  • Imaged by UCSF Chimera
  • Download
Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

Downloads & links

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Map

FileDownload / File: emd_0104.map.gz / Format: CCP4 / Size: 1.3 GB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.1 Å/pix.
x 700 pix.
= 770. Å
1.1 Å/pix.
x 700 pix.
= 770. Å
1.1 Å/pix.
x 700 pix.
= 770. Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.1 Å
Density
Contour LevelBy AUTHOR: 2.3 / Movie #1: 2.3
Minimum - Maximum-5.9298544 - 11.759964999999999
Average (Standard dev.)0.023547024 (±0.35517386)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions700700700
Spacing700700700
CellA=B=C: 770.0 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.11.11.1
M x/y/z700700700
origin x/y/z0.0000.0000.000
length x/y/z770.000770.000770.000
α/β/γ90.00090.00090.000
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS700700700
D min/max/mean-5.93011.7600.024

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Supplemental data

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Sample components

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Entire Thermus thermophilus 100S hibernating ribosome (ice)

EntireName: Thermus thermophilus 100S hibernating ribosome (ice)
Details: T. thermophilus 100S hibernating ribosome cryo-EM reconstruction from particles in unsupported ice
Number of components: 57

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Component #1: protein, Thermus thermophilus 100S hibernating ribosome (ice)

ProteinName: Thermus thermophilus 100S hibernating ribosome (ice)
Details: T. thermophilus 100S hibernating ribosome cryo-EM reconstruction from particles in unsupported ice
Recombinant expression: No
MassTheoretical: 2.35 MDa

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Component #2: protein, Ribosome

ProteinName: Ribosome / Recombinant expression: No
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)

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Component #3: protein, Ribosome hibernation promoting factor

ProteinName: Ribosome hibernation promoting factor / Recombinant expression: No
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Source (engineered)Expression System: Escherichia coli (E. coli)

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Component #4: protein, 50S ribosomal protein L2

ProteinName: 50S ribosomal protein L2 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 29.985799 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)

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Component #5: protein, 50S ribosomal protein L3

ProteinName: 50S ribosomal protein L3 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 22.321031 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)

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Component #6: protein, 50S ribosomal protein L4

ProteinName: 50S ribosomal protein L4 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 23.071721 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)

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Component #7: protein, 50S ribosomal protein L5

ProteinName: 50S ribosomal protein L5 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 20.9304 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #8: protein, 50S ribosomal protein L6

ProteinName: 50S ribosomal protein L6 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 18.567633 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #9: protein, 50S ribosomal protein L9

ProteinName: 50S ribosomal protein L9 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 5.454388 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #10: protein, 50S ribosomal protein L13

ProteinName: 50S ribosomal protein L13 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 15.699658 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #11: protein, 50S ribosomal protein L14

ProteinName: 50S ribosomal protein L14 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 13.323612 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #12: protein, 50S ribosomal protein L15

ProteinName: 50S ribosomal protein L15 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 16.319142 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #13: protein, 50S ribosomal protein L16

ProteinName: 50S ribosomal protein L16 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 15.993909 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #14: protein, 50S ribosomal protein L17

ProteinName: 50S ribosomal protein L17 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 13.618952 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #15: protein, 50S ribosomal protein L18

ProteinName: 50S ribosomal protein L18 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 12.508649 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #16: protein, 50S ribosomal protein L19

ProteinName: 50S ribosomal protein L19 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 16.218812 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #17: protein, 50S ribosomal protein L20

ProteinName: 50S ribosomal protein L20 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 13.648081 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #18: protein, 50S ribosomal protein L21

ProteinName: 50S ribosomal protein L21 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 11.069153 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #19: protein, 50S ribosomal protein L22

ProteinName: 50S ribosomal protein L22 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 12.808055 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #20: protein, 50S ribosomal protein L23

ProteinName: 50S ribosomal protein L23 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 10.273117 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #21: protein, 50S ribosomal protein L24

ProteinName: 50S ribosomal protein L24 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 11.23871 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #22: protein, 50S ribosomal protein L25

ProteinName: 50S ribosomal protein L25 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 20.26833 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #23: protein, 50S ribosomal protein L27

ProteinName: 50S ribosomal protein L27 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 8.703032 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #24: protein, 50S ribosomal protein L28

ProteinName: 50S ribosomal protein L28 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 10.872965 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #25: protein, 50S ribosomal protein L29

ProteinName: 50S ribosomal protein L29 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 8.296725 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #26: protein, 50S ribosomal protein L30

ProteinName: 50S ribosomal protein L30 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 6.667931 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #27: protein, 50S ribosomal protein L31

ProteinName: 50S ribosomal protein L31 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 7.377532 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #28: protein, 50S ribosomal protein L32

ProteinName: 50S ribosomal protein L32 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 6.590854 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #29: protein, 50S ribosomal protein L33

ProteinName: 50S ribosomal protein L33 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 5.602612 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #30: protein, 50S ribosomal protein L34

ProteinName: 50S ribosomal protein L34 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 6.132449 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #31: protein, 50S ribosomal protein L35

ProteinName: 50S ribosomal protein L35 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 6.985579 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #32: nucleic-acid, 23S ribosomal RNA

nucleic acidName: 23S ribosomal RNA / Class: RNA / Structure: OTHER / Synthetic: No
Sequence:
GGUCAAGAUG GUAAGGGCCC ACGGUGGAUG CCUCGGCACC CGAGCCGAUG AAGGACGUGG CUACCUGCGA UAAGCCAGGG GGAGCCGGUA GCGGGCGUGG AUCCCUGGAU GUCCGAAUGG GGGAACCCGG CCGGCGGGAA CGCCGGUCAC CGCGCUUUUU GCGCGGGGGG AACCUGGGGA ACUGAAACAU CUCAGUACCC AGAGGAGAGG AAAGAGAAAU CGACUCCCUG AGUAGCGGCG AGCGAAAGGG GACCAGCCUA AACCGUCCGG CUUGUCCGGG CGGGGUCGUG GGGCCCUCGG ACACCGAAUC CCCAGCCUAG CCGAAGCUGU UGGGAAGCAG CGCCAGAGAG GGUGAAAGCC CCGUAGGCGA AAGGUGGGGG GAUAGGUGAG GGUACCCGAG UACCCCGUGG UUCGUGGAGC CAUGGGGGAA UCUGGGCGGA CCACCGCCUA AGGCUAAGUA CUCCGGGUGA CCGAUAGCGC ACCAGUACCG UGAGGGAAAG GUGAAAAGAA CCCCGGGAGG GGAGUGAAAU AGAGCCUGAA ACCGUGGGCU UACAAGCAGU CACGGCCCCG CAAGGGGUUG UGGCGUGCCU AUUGAAGCAU GAGCCGGCGA CUCACGGUCG UGGGCGAGCU UAAGCCGUUG AGGCGGAGGC GUAGGGAAAC CGAGUCCGAA CAGGGCGCAA ACGGCCCGCA CGCGGGCCGA AAAGUCCGCG GCCGUGGACC CGAAACCGGG CGAGCUAGCC CUGGCCAGGG UGAAGCUGGG GUGAGACCCA GUGGAGGCCC GAACCGGUGG GGGAUGCAAA CCCCUCGGAU GAGCUGGGGC UAGGAGUGAA AAGCUAACCG AGCCCGGAGA UAGCUGGUUC UCCCCGAAAU GACUUUAGGG UCAGCCUCAG GCGCUGACUG GGGCCUGUAG AGCACUGAUA GGGCUAGGGG GCCCACCAGC CUACCAAACC CUGUCAAACU CCGAAGGGUC CCAGGUGGAG CCUGGGAGUG AGGGCGCGAG CGAUAACGUC CGCGUCCGAG CGCGGGAACA ACCGAGACCG CCAGCUAAGG CCCCCAAGUC UGGGCUAAGU GGUAAAGGAU GUGGCGCCGC GAAGACAGCC AGGAUGUUGG CUUAGAAGCA GCCAUCAUUU AAAGAGUGCG UAAUAGCUCA CUGGUCGAGU GGCGCCGCGC CGAAAAUGAU CGGGGCUUAA GCCCAGCGCC GAAGCUGCGG GUCUGGGGGA UGACCCCAGG CGGUAGGGGA GCGUUCCCGA UGCCGAUGAA GGCCGACCCG CGAGGGCGGC UGGAGGUAAG GGAAGUGCGA AUGCCGGCAU GAGUAACGAU AAAGAGGGUG AGAAUCCCUC UCGCCGUAAG CCCAAGGGUU CCUACGCAAU GGUCGUCAGC GUAGGGUUAG GCGGGACCUA AGGUGAAGCC GAAAGGCGUA GCCGAAGGGC AGCCGGUUAA UAUUCCGGCC CUUCCCGCAG GUGCGAUGGG GGGACGCUCU AGGCUAGGGG GACCGGAGCC AUGGACGAGC CCGGCCAGAA GCGCAGGGUG GGAGGUAGGC AAAUCCGCCU CCCAACAAGC UCUGCGUGGU GGGGAAGCCC GUACGGGUGA CAACCCCCCG AAGCCAGGGA GCCAAGAAAA GCCUCUAAGC ACAACCUGCG GGAACCCGUA CCGCAAACCG ACACAGGUGG GCGGGUGCAA GAGCACUCAG GCGCGCGGGA GAACCCUCGC CAAGGAACUC UGCAAGUUGG CCCCGUAACU UCGGGAGAAG GGGUGCUCCC UGGGGUGAUG AGCCCCGGGG AGCCGCAGUG AACAGGCUCU GGCGACUGUU UACCAAAAAC ACAGCUCUCU GCGAACUCGU AAGAGGAGGU AUAGGGAGCG ACGCUUGCCC GGUGCCGGAA GGUCAAGGGG AGGGGUGCAA GCCCCGAACC GAAGCCCCGG UGAACGGCGG CCGUAACUAU AACGGUCCUA AGGUAGCGAA AUUCCUUGUC GGGUAAGUUC CGACCUGCAC GAAAAGCGUA ACGACCGGAG CGCUGUCUCG GCGAGGGACC CGGUGAAAUU GAACUGGCCG UGAAGAUGCG GCCUACCCGU GGCAGGACGA AAAGACCCCG UGGAGCUUUA CUGCAGCCUG GUGUUGGCUC UUGGUCGCGC CUGCGUAGGA UAGGUGGGAG CCUGUGAACC CCCGCCUCCG GGUGGGGGGG AGGCGCCGGU GAAAUACCAC CCUGGCGCGG CUGGGGGCCU AACCCUCGGA UGGGGGGACA GCGCUUGGCG GGCAGUUUGA CUGGGGCGGU CGCCUCCUAA AAGGUAACGG AGGCGCCCAA AGGUCCCCUC AGGCGGGACG GAAAUCCGCC GGAGAGCGCA AGGGUAGAAG GGGGCCUGAC UGCGAGGCCU GCAAGCCGAG CAGGGGCGAA AGCCGGGCCU AGUGAACCGG UGGUCCCGUG UGGAAGGGCC AUCGAUCAAC GGAUAAAAGU UACCCCGGGG AUAACAGGCU GAUCUCCCCC GAGCGUCCAC AGCGGCGGGG AGGUUUGGCA CCUCGAUGUC GGCUCGUCGC AUCCUGGGGC UGAAGAAGGU CCCAAGGGUU GGGCUGUUCG CCCAUUAAAG CGGCACGCGA GCUGGGUUCA GAACGUCGUG AGACAGUUCG GUCUCUAUCC GCCACGGGCG CAGGAGGCUU GAGGGGGGCU CUUCCUAGUA CGAGAGGACC GGAAGGGACG CACCUCUGGU UUCCCAGCUG UCCCUCCAGG GGCAUAAGCU GGGUAGCCAU GUGCGGAAGG GAUAACCGCU GAAAGCAUCU AAGCGGGAAG CCCGCCCCAA GAUGAGGCCU CCCACGGCGU CAAGCCGGUA AGGACCCGGG AAGACCACCC GGUGGAUGGG CCGGGGGUGU AAGCGCCGCG AGGCGUUGAG CCGACCGGUC CCAAUCGUCC GAGGUCUUGA CC
MassTheoretical: 947.013 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)

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Component #33: nucleic-acid, 5S ribosomal RNA

nucleic acidName: 5S ribosomal RNA / Class: RNA / Structure: OTHER / Synthetic: No
Sequence:
AAUCCCCCGU GCCCAUAGCG GCGUGGAACC ACCCGUUCCC AUUCCGAACA CGGAAGUGAA ACGCGCCAGC GCCGAUGGUA CUGGGCGGGC GACCGCCUGG GAGAGUAGGU CGGUGCGGGG GA
MassTheoretical: 39.540617 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)

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Component #34: protein, 50S ribosomal protein L36

ProteinName: 50S ribosomal protein L36 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 4.304215 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #35: protein, 30S ribosomal protein S2

ProteinName: 30S ribosomal protein S2 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 27.330648 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #36: protein, 30S ribosomal protein S3

ProteinName: 30S ribosomal protein S3 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 22.86243 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #37: protein, 30S ribosomal protein S4

ProteinName: 30S ribosomal protein S4 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 24.242254 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

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Component #38: protein, 30S ribosomal protein S5

ProteinName: 30S ribosomal protein S5 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 16.460193 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

+
Component #39: protein, 30S ribosomal protein S6

ProteinName: 30S ribosomal protein S6 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 11.988753 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

+
Component #40: protein, 30S ribosomal protein S7

ProteinName: 30S ribosomal protein S7 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 17.919775 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

+
Component #41: protein, 30S ribosomal protein S8

ProteinName: 30S ribosomal protein S8 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 15.86857 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

+
Component #42: protein, 30S ribosomal protein S9

ProteinName: 30S ribosomal protein S9 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 14.279419 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

+
Component #43: protein, 30S ribosomal protein S10

ProteinName: 30S ribosomal protein S10 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 11.398308 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

+
Component #44: protein, 30S ribosomal protein S11

ProteinName: 30S ribosomal protein S11 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 12.519292 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

+
Component #45: protein, 30S ribosomal protein S12

ProteinName: 30S ribosomal protein S12 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 13.875388 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

+
Component #46: protein, 30S ribosomal protein S13

ProteinName: 30S ribosomal protein S13 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 13.308508 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

+
Component #47: protein, 30S ribosomal protein S14 type Z

ProteinName: 30S ribosomal protein S14 type ZRibosome / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 7.027529 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

+
Component #48: protein, 30S ribosomal protein S15

ProteinName: 30S ribosomal protein S15 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 10.447213 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

+
Component #49: protein, 30S ribosomal protein S16

ProteinName: 30S ribosomal protein S16 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 9.995546 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

+
Component #50: protein, 30S ribosomal protein S17

ProteinName: 30S ribosomal protein S17 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 11.880098 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

+
Component #51: protein, 30S ribosomal protein S18

ProteinName: 30S ribosomal protein S18 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 7.312723 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

+
Component #52: protein, 30S ribosomal protein S19

ProteinName: 30S ribosomal protein S19 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 8.872271 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

+
Component #53: protein, 30S ribosomal protein S20

ProteinName: 30S ribosomal protein S20 / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 10.921086 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

+
Component #54: protein, 30S ribosomal protein Thx

ProteinName: 30S ribosomal protein ThxRibosome / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 3.089655 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579

+
Component #55: protein, Ribosome hibernation promoting factor

ProteinName: Ribosome hibernation promoting factor / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 6.769808 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Source (engineered)Expression System: Escherichia coli (E. coli)

+
Component #56: nucleic-acid, 16S ribosomal RNA

nucleic acidName: 16S ribosomal RNA / Class: RNA / Structure: OTHER / Synthetic: No
Sequence:
UGGAGAGUUU GAUCCUGGCU CAGGGUGAAC GCUGGCGGCG UGCCUAAGAC AUGCAAGUCG UGCGGGCCGC GGGGUUUUAC UCCGUGGUCA GCGGCGGACG GGUGAGUAAC GCGUGGGUGA CCUACCCGGA AGAGGGGGAC AACCCGGGGA AACUCGGGCU AAUCCCCCAU GUGGACCCGC CCCUUGGGGU GUGUCCAAAG GGCUUUGCCC GCUUCCGGAU GGGCCCGCGU CCCAUCAGCU AGUUGGUGGG GUAAUGGCCC ACCAAGGCGA CGACGGGUAG CCGGUCUGAG AGGAUGGCCG GCCACAGGGG CACUGAGACA CGGGCCCCAC UCCUACGGGA GGCAGCAGUU AGGAAUCUUC CGCAAUGGGC GCAAGCCUGA CGGAGCGACG CCGCUUGGAG GAAGAAGCCC UUCGGGGUGU AAACUCCUGA ACCCGGGACG AAACCCCCGA CGAGGGGACU GACGGUACCG GGGUAAUAGC GCCGGCCAAC UCCGUGCCAG CAGCCGCGGU AAUACGGAGG GCGCGAGCGU UACCCGGAUU CACUGGGCGU AAAGGGCGUG UAGGCGGCCU GGGGCGUCCC AUGUGAAAGA CCACGGCUCA ACCGUGGGGG AGCGUGGGAU ACGCUCAGGC UAGACGGUGG GAGAGGGUGG UGGAAUUCCC GGAGUAGCGG UGAAAUGCGC AGAUACCGGG AGGAACGCCG AUGGCGAAGG CAGCCACCUG GUCCACCCGU GACGCUGAGG CGCGAAAGCG UGGGGAGCAA ACCGGAUUAG AUACCCGGGU AGUCCACGCC CUAAACGAUG CGCGCUAGGU CUCUGGGUCU CCUGGGGGCC GAAGCUAACG CGUUAAGCGC GCCGCCUGGG GAGUACGGCC GCAAGGCUGA AACUCAAAGG AAUUGACGGG GGCCCGCACA AGCGGUGGAG CAUGUGGUUU AAUUCGAAGC AACGCGAAGA ACCUUACCAG GCCUUGACAU GCUAGGGAAC CCGGGUGAAA GCCUGGGGUG CCCCGCGAGG GGAGCCCUAG CACAGGUGCU GCAUGGCCGU CGUCAGCUCG UGCCGUGAGG UGUUGGGUUA AGUCCCGCAA CGAGCGCAAC CCCCGCCGUU AGUUGCCAGC GGUUCGGCCG GGCACUCUAA CGGGACUGCC CGCGAAAGCG GGAGGAAGGA GGGGACGACG UCUGGUCAGC AUGGCCCUUA CGGCCUGGGC GACACACGUG CUACAAUGCC CACUACAAAG CGAUGCCACC CGGCAACGGG GAGCUAAUCG CAAAAAGGUG GGCCCAGUUC GGAUUGGGGU CUGCAACCCG ACCCCAUGAA GCCGGAAUCG CUAGUAAUCG CGGAUCAGCC AUGCCGCGGU GAAUACGUUC CCGGGCCUUG UACACACCGC CCGUCACGCC AUGGGAGCGG GCUCUACCCG AAGUCGCCGG GAGCCUACGG GCAGGCGCCG AGGGUAGGGC CCGUGACUGG GGCGAAGUCG UAACAAGGUA GCUGUACCGG AAGGUGCGGC UGGAUC
MassTheoretical: 489.002531 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)

+
Component #57: protein, Ribosome hibernation promoting factor

ProteinName: Ribosome hibernation promoting factor / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 13.694619 kDa
SourceSpecies: Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Source (engineered)Expression System: Escherichia coli (E. coli)

-
Experimental details

-
Sample preparation

SpecimenSpecimen state: Particle / Method: cryo EM
Sample solutionpH: 7.5
VitrificationInstrument: FEI VITROBOT MARK IV / Cryogen name: ETHANE

-
Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
ImagingMicroscope: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Electron dose: 1.06 e/Å2 / Illumination mode: OTHER
LensImaging mode: OTHER
Specimen HolderModel: OTHER
CameraDetector: GATAN K2 SUMMIT (4k x 4k)

-
Image processing

ProcessingMethod: single particle reconstruction / Number of projections: 25368
3D reconstructionResolution: 4.57 Å / Resolution method: FSC 0.143 CUT-OFF

-
Atomic model buiding

Output model

+
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