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- PDB-6gzq: T. thermophilus hibernating 70S ribosome -

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Entry
Database: PDB / ID: 6gzq
TitleT. thermophilus hibernating 70S ribosome
Components
  • (30S ribosomal protein ...) x 20
  • (50S ribosomal protein ...) x 29
  • 16S ribosomal RNA
  • 23S ribosomal RNA
  • 5S ribosomal RNA
  • Ribosome hibernation promoting factor
KeywordsRIBOSOME / Ribosome / hibernation / 100S dimer / cryo-EM
Function / homologyRibosomal protein S8 superfamily / Ribosomal protein S18 superfamily / RNA-binding S4 domain superfamily / Ribosomal protein S11 superfamily / Ribosomal protein L9, N-terminal domain superfamily / Ribosomal protein L10e/L16 superfamily / Ribosomal protein L30, ferredoxin-like fold domain superfamily / Ribosomal protein L13 superfamily / Ribosomal protein L14 superfamily / Ribosomal protein L35 superfamily ...Ribosomal protein S8 superfamily / Ribosomal protein S18 superfamily / RNA-binding S4 domain superfamily / Ribosomal protein S11 superfamily / Ribosomal protein L9, N-terminal domain superfamily / Ribosomal protein L10e/L16 superfamily / Ribosomal protein L30, ferredoxin-like fold domain superfamily / Ribosomal protein L13 superfamily / Ribosomal protein L14 superfamily / Ribosomal protein L35 superfamily / Ribosomal protein S10 domain superfamily / Ribosomal protein S7 domain superfamily / Ribosomal protein L9, C-terminal domain superfamily / Ribosomal protein L6, alpha-beta domain superfamily / Ribosome hibernation promotion factor-like / Ribosomal protein S20 superfamily / Ribosomal protein L25, C-terminal / Sigma 54 modulation/S30EA ribosomal protein, C-terminal domain superfamily / Ribosomal protein L22/L17 superfamily / Ribosomal protein L22p/L17e / Ribosomal protein L3 / Ribosomal protein L5 / Ribosomal protein L23 / Ribosomal protein S14p/S29e / Ribosomal protein L16p/L10e / Ribosomal protein L14p/L23e / Ribosomal protein S19 / Ribosomal protein L33 superfamily / Ribosomal protein S3, C-terminal domain / Ribosomal Proteins L2, RNA binding domain / Ribosomal protein S7p/S5e / Ribosomal protein S12/S23 / Ribosomal protein S4/S9 N-terminal domain / Ribosomal protein L19 superfamily / Ribosomal protein S3, C-terminal domain superfamily / Ribosomal protein L17 superfamily / Ribosomal protein S2 / Ribosomal protein L4 domain superfamily / 30s ribosomal protein S13, C-terminal / Ribosomal protein L28/L24 / Ribosomal protein S16 domain superfamily / Ribosomal protein S7 domain / Ribosomal protein S2, flavodoxin-like domain superfamily / Ribosomal protein S19, superfamily / Ribosomal protein L13, conserved site / Ribosomal protein L31 type A / Ribosomal protein S14, type Z / Ribosomal protein S9, bacterial/plastid / Ribosomal protein L5 domain superfamily / Ribosomal protein S4/S9 / Ribosomal protein L2, conserved site / Ribosomal protein L2, C-terminal / Ribosomal protein S10 domain / Ribosomal protein L21-like / Ribosomal L18e/L15P superfamily / L28p-like / L21-like superfamily / Ribosomal protein L29/L35 superfamily / Ribosomal protein L27 signature. / Ribosomal protein S6 superfamily / Ribosomal protein L36 superfamily / Ribosomal protein L20, C-terminal / Ribosome hibernation promoting factor, long/plastid / Ribosomal protein L25 / Sigma 54 modulation/S30EA ribosomal protein, C-terminal / 30S ribosomal protein Thx / Ribosomal protein L5, N-terminal / Ribosomal protein L5, C-terminal / Ribosomal protein L15 / 30S ribosomal protein / Ribosomal protein S15 / Ribosomal protein L30p/L7e / Ribosomal protein L35 / Ribosomal protein S7 signature. / Ribosomal protein S19 signature. / Ribosomal protein S18 signature. / Ribosomal protein S17 signature. / Ribosomal protein S12 signature. / Ribosomal protein S11 signature. / Ribosomal protein S8 signature. / Ribosomal protein L14 signature. / Ribosomal protein S9 signature. / Ribosomal proteins 50S L24/mitochondrial 39S L24 / 30S ribosomal protein Thx / Sigma 54 modulation/S30EA ribosomal protein C terminus / Ribosomal protein TL5, C-terminal domain / KH domain / Ribosomal protein L9, C-terminal domain / Ribosomal protein L5 signature. / Ribosomal protein S10 signature. / Ribosomal protein S5, C-terminal domain / Ribosomal protein L33 signature. / Ribosomal protein L13 signature. / Ribosomal protein L9 signature. / Ribosomal protein S13 signature. / Ribosomal protein L30 signature. / Ribosomal protein S4 signature. / Ribosomal protein S5 signature. / Ribosomal protein L29 signature. / Ribosomal protein S15 signature.
Function and homology information
Specimen sourceThermus thermophilus (bacteria)
Thermus thermophilus HB8 (bacteria)
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / 3.28 Å resolution
AuthorsFlygaard, R.K. / Jenner, L.B.
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
Validation Report
SummaryFull reportAbout validation report
DateDeposition: Jul 4, 2018 / Release: Oct 24, 2018

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Assembly

Deposited unit
C1: 50S ribosomal protein L2
D1: 50S ribosomal protein L3
E1: 50S ribosomal protein L4
F1: 50S ribosomal protein L5
G1: 50S ribosomal protein L6
H1: 50S ribosomal protein L9
I1: 50S ribosomal protein L13
J1: 50S ribosomal protein L14
K1: 50S ribosomal protein L15
L1: 50S ribosomal protein L16
M1: 50S ribosomal protein L17
N1: 50S ribosomal protein L18
O1: 50S ribosomal protein L19
P1: 50S ribosomal protein L20
Q1: 50S ribosomal protein L21
R1: 50S ribosomal protein L22
S1: 50S ribosomal protein L23
T1: 50S ribosomal protein L24
U1: 50S ribosomal protein L25
V1: 50S ribosomal protein L27
W1: 50S ribosomal protein L28
X1: 50S ribosomal protein L29
Y1: 50S ribosomal protein L30
Z1: 50S ribosomal protein L31
a1: 50S ribosomal protein L32
b1: 50S ribosomal protein L33
c1: 50S ribosomal protein L34
d1: 50S ribosomal protein L35
A1: 23S ribosomal RNA
B1: 5S ribosomal RNA
e1: 50S ribosomal protein L36
B2: 30S ribosomal protein S2
C2: 30S ribosomal protein S3
D2: 30S ribosomal protein S4
E2: 30S ribosomal protein S5
F2: 30S ribosomal protein S6
G2: 30S ribosomal protein S7
H2: 30S ribosomal protein S8
I2: 30S ribosomal protein S9
J2: 30S ribosomal protein S10
K2: 30S ribosomal protein S11
L2: 30S ribosomal protein S12
M2: 30S ribosomal protein S13
N2: 30S ribosomal protein S14 type Z
O2: 30S ribosomal protein S15
P2: 30S ribosomal protein S16
Q2: 30S ribosomal protein S17
R2: 30S ribosomal protein S18
S2: 30S ribosomal protein S19
T2: 30S ribosomal protein S20
U2: 30S ribosomal protein Thx
V2: Ribosome hibernation promoting factor
A2: 16S ribosomal RNA


Theoretical massNumber of molelcules
Total (without water)2,135,99053
Polyers2,135,99053
Non-polymers00
Water0
1


  • idetical with deposited unit
  • defined by author&software
  • Evidence: none
TypeNameSymmetry operationNumber
identity operation1_5551
Buried area (Å2)258780
ΔGint (kcal/M)-2056
Surface area (Å2)816290
MethodPISA

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Components

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50S ribosomal protein ... , 29 types, 29 molecules C1D1E1F1G1H1I1J1K1L1M1N1O1P1Q1R1S1T1U1V1W1X1Y1Z1a1b1c1d1e1

#1: Protein/peptide 50S ribosomal protein L2 /


Mass: 29985.799 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P60405
#2: Protein/peptide 50S ribosomal protein L3 /


Mass: 22321.031 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SHN8
#3: Protein/peptide 50S ribosomal protein L4 / / L1e


Mass: 23071.721 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SHN9
#4: Protein/peptide 50S ribosomal protein L5 /


Mass: 20930.400 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SHQ0
#5: Protein/peptide 50S ribosomal protein L6 /


Mass: 18567.633 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P0DOY8
#6: Protein/peptide 50S ribosomal protein L9 /


Mass: 5454.388 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SLQ1
#7: Protein/peptide 50S ribosomal protein L13 /


Mass: 15699.658 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P60488
#8: Protein/peptide 50S ribosomal protein L14 /


Mass: 13323.612 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SHP8
#9: Protein/peptide 50S ribosomal protein L15 /


Mass: 16319.142 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SHQ7
#10: Protein/peptide 50S ribosomal protein L16 /


Mass: 15993.909 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P60489
#11: Protein/peptide 50S ribosomal protein L17 /


Mass: 13618.952 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q9Z9H5
#12: Protein/peptide 50S ribosomal protein L18 / / TL24


Mass: 12508.649 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SHQ4
#13: Protein/peptide 50S ribosomal protein L19 /


Mass: 16218.812 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P60490
#14: Protein/peptide 50S ribosomal protein L20 /


Mass: 13648.081 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P60491
#15: Protein/peptide 50S ribosomal protein L21 /


Mass: 11069.153 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P60492
#16: Protein/peptide 50S ribosomal protein L22 /


Mass: 12808.055 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SHP3
#17: Protein/peptide 50S ribosomal protein L23 /


Mass: 10273.117 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SHP0
#18: Protein/peptide 50S ribosomal protein L24 /


Mass: 11238.710 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SHP9
#19: Protein/peptide 50S ribosomal protein L25 / / TL5


Mass: 20268.330 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SHZ1
#20: Protein/peptide 50S ribosomal protein L27 /


Mass: 8703.032 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P60493
#21: Protein/peptide 50S ribosomal protein L28 /


Mass: 10872.965 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P60494
#22: Protein/peptide 50S ribosomal protein L29 /


Mass: 8296.725 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SHP6
#23: Protein/peptide 50S ribosomal protein L30 /


Mass: 6667.931 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SHQ6
#24: Protein/peptide 50S ribosomal protein L31 /


Mass: 7377.532 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SJE1
#25: Protein/peptide 50S ribosomal protein L32 /


Mass: 6590.854 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P80339
#26: Protein/peptide 50S ribosomal protein L33 /


Mass: 5602.612 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P35871
#27: Protein/peptide 50S ribosomal protein L34 /


Mass: 6132.449 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P80340
#28: Protein/peptide 50S ribosomal protein L35 /


Mass: 6985.579 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SKU1
#31: Protein/peptide 50S ribosomal protein L36 / / Ribosomal protein B


Mass: 4304.215 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SHR2

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RNA chain , 3 types, 3 molecules A1B1A2

#29: RNA chain 23S ribosomal RNA /


Mass: 947013.000 Da / Num. of mol.: 1 / Source: (natural) Thermus thermophilus HB8 (bacteria) / References: GenBank: 55771382
#30: RNA chain 5S ribosomal RNA /


Mass: 39540.617 Da / Num. of mol.: 1 / Source: (natural) Thermus thermophilus HB8 (bacteria) / References: GenBank: 55771382
#53: RNA chain 16S ribosomal RNA /


Mass: 489002.531 Da / Num. of mol.: 1 / Source: (natural) Thermus thermophilus HB8 (bacteria) / References: GenBank: 55771382

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30S ribosomal protein ... , 20 types, 20 molecules B2C2D2E2F2G2H2I2J2K2L2M2N2O2P2Q2R2S2T2U2

#32: Protein/peptide 30S ribosomal protein S2 /


Mass: 27330.648 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P80371
#33: Protein/peptide 30S ribosomal protein S3 /


Mass: 22862.430 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P80372
#34: Protein/peptide 30S ribosomal protein S4 /


Mass: 24242.254 Da / Num. of mol.: 1 / Source: (natural) Thermus thermophilus HB8 (bacteria) / Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P80373
#35: Protein/peptide 30S ribosomal protein S5 /


Mass: 16460.193 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SHQ5
#36: Protein/peptide 30S ribosomal protein S6 / / TS9


Mass: 11988.753 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SLP8
#37: Protein/peptide 30S ribosomal protein S7 /


Mass: 17919.775 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P17291
#38: Protein/peptide 30S ribosomal protein S8 /


Mass: 15868.570 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P0DOY9
#39: Protein/peptide 30S ribosomal protein S9 /


Mass: 14279.419 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P80374
#40: Protein/peptide 30S ribosomal protein S10 /


Mass: 11398.308 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SHN7
#41: Protein/peptide 30S ribosomal protein S11 /


Mass: 12519.292 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P80376
#42: Protein/peptide 30S ribosomal protein S12 /


Mass: 13875.388 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SHN3
#43: Protein/peptide 30S ribosomal protein S13 /


Mass: 13308.508 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P80377
#44: Protein/peptide 30S ribosomal protein S14 type Z / Ribosome


Mass: 7027.529 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P0DOY6
#45: Protein/peptide 30S ribosomal protein S15 /


Mass: 10447.213 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SJ76
#46: Protein/peptide 30S ribosomal protein S16 /


Mass: 9995.546 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SJH3
#47: Protein/peptide 30S ribosomal protein S17 /


Mass: 11880.098 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P0DOY7
#48: Protein/peptide 30S ribosomal protein S18 /


Mass: 7312.723 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SLQ0
#49: Protein/peptide 30S ribosomal protein S19 /


Mass: 8872.271 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SHP2
#50: Protein/peptide 30S ribosomal protein S20 /


Mass: 10921.086 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: P80380
#51: Protein/peptide 30S ribosomal protein Thx / Ribosome / S31


Mass: 3089.655 Da / Num. of mol.: 1
Source: (natural) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / References: UniProt: Q5SIH3

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Protein/peptide , 1 types, 1 molecules V2

#52: Protein/peptide Ribosome hibernation promoting factor / HPF


Mass: 13980.993 Da / Num. of mol.: 1
Source: (gene. exp.) Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (bacteria)
Strain: HB8 / ATCC 27634 / DSM 579 / Gene: hpf, TTHA1294 / Production host: Escherichia coli (E. coli) / References: UniProt: Q5SIS0

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: PARTICLE / Reconstruction method: single particle reconstruction

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Sample preparation

Component
IDNameTypeEntity IDParent IDSource
1Thermus thermophilus 70S hibernating ribosome from 100S ribosome dimerRIBOSOME1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 530MULTIPLE SOURCES
2Thermus thermophilus 70S hibernating ribosome from 100S ribosome dimerRIBOSOME1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 531NATURAL
3Ribosome hibernation promoting factorRIBOSOME521RECOMBINANT
Molecular weightValue: 2.35 MDa / Experimental value: NO
Source (natural)
IDEntity assembly IDNcbi tax IDOrganism
12300852Thermus thermophilus HB8 (bacteria)
23300852Thermus thermophilus HB8 (bacteria)
Source (recombinant)Organism: Escherichia coli (E. coli)
Buffer solutionpH: 7.5
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
VitrificationInstrument: FEI VITROBOT MARK IV / Cryogen name: ETHANE

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Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
MicroscopyMicroscope model: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: OTHER
Electron lensMode: OTHER
Image recordingElectron dose: 1.06 e/Å2 / Detector mode: SUPER-RESOLUTION / Film or detector model: GATAN K2 SUMMIT (4k x 4k)

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Processing

CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
SymmetryPoint symmetry: C1
3D reconstructionResolution: 3.28 Å / Resolution method: FSC 0.143 CUT-OFF / Number of particles: 45422 / Symmetry type: POINT

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