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- EMDB-0231: Cryo-EM structure of the Trypanosoma brucei mitochondrial ribosom... -

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Basic information

Entry
Database: EMDB / ID: 0231
TitleCryo-EM structure of the Trypanosoma brucei mitochondrial ribosome - This entry contains the large mitoribosomal subunit
Map datamap of the T. brucei mitoribosome large subunit
Samplelarge subunit of the T. brucei mitoribosome:
bl27m / bl28m / ul29m / ul30m / bl31m / bl32m / bl33m / bl35m / bl36m / (Ribosomal protein ...) x 3 ...bl27m / bl28m / ul29m / ul30m / bl31m / bl32m / bl33m / bl35m / bl36m / (Ribosomal protein ...) x 3 / bl9m / ul10m / (50S ribosomal protein ...) x 3 / ul15m / bl19m / bl20m / bl21m / ul22m / ul23m / ul24m / ml38 / ml40 / ml41 / ml42 / ml43 / ml46 / ml49 / ml52 / ml53 / ml63 / ml64 / (bL12m) x 3 / nucleic-acidNucleic acid / ml67 / ml68 / ml69 / mL70 / ml71 / ml72 / ml73 / ml74 / ml75 / ml76 / Chaperone protein DNAj, putative / ml78 / ml79 / ml80 / ml81 / ml82 / (Peptidyl-prolyl cis-trans ...) x 2 / ml84 / ml85 / ml86 / ml87 / ml88 / ml89 / ml90 / ml91 / ml93 / ml94 / ml95 / ml96 / ml97 / ml98 / ml99 / ml100 / (UNK) x 13 / (ligand) x 3
Function / homologyRibosomal protein L22p/L17e / Ribosomal protein L18e/L15P / Ribosomal protein L20, C-terminal / Alpha/Beta hydrolase fold / Cyclophilin-like domain superfamily / Ribosomal protein L21-like / Ribosomal protein L28/L24 / Cyclophilin-type peptidyl-prolyl cis-trans isomerase / Ribosomal protein L4 domain superfamily / Ribosomal protein L46, N-terminal ...Ribosomal protein L22p/L17e / Ribosomal protein L18e/L15P / Ribosomal protein L20, C-terminal / Alpha/Beta hydrolase fold / Cyclophilin-like domain superfamily / Ribosomal protein L21-like / Ribosomal protein L28/L24 / Cyclophilin-type peptidyl-prolyl cis-trans isomerase / Ribosomal protein L4 domain superfamily / Ribosomal protein L46, N-terminal / Ribosomal protein L11, N-terminal / L21-like superfamily / Ribosomal protein L11, C-terminal / Ribosomal protein L9, N-terminal / Ribosomal protein L3, bacterial/organelle-type / Ribosomal protein L10e/L16 / Ribosomal protein L30, ferredoxin-like fold domain / NUDIX hydrolase-like domain superfamily / Ribosomal protein L2, domain 2 / Ribosomal protein L25/L23 / 50S ribosomal protein uL4 / Phosphatidylethanolamine-binding protein, eukaryotic / Ribosomal L18e/L15P superfamily / Nucleotide-binding alpha-beta plait domain superfamily / Ribosomal protein L10e/L16 superfamily / Ribosomal protein L3 / Ribosomal protein L23 / Ribosomal protein L16p/L10e / LIM domain / DnaJ domain / Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD / Ribosomal protein L33 superfamily / MRP-L47 superfamily, mitochondrial / Ribosomal protein L28/L24 superfamily / Ribosomal protein L30, ferredoxin-like fold domain superfamily / Zinc finger C2H2 superfamily / Ribosomal protein L13 superfamily / Rhodanese-like domain superfamily / Chaperone J-domain superfamily / Ribosomal protein L11/L12, N-terminal domain superfamily / Ribosomal protein L11, C-terminal domain superfamily / PEBP-like superfamily / Ribosomal protein L22/L17 superfamily / Ribosomal protein L17 superfamily / Thioredoxin-like superfamily / Ribosomal protein L23/L15e core domain superfamily / Tetratricopeptide-like helical domain superfamily / Ribosomal protein L30p/L7e / Ribosomal protein L9, N-terminal domain / Ribosomal protein L16 / Ribosomal protein L47, mitochondrial / Ribosomal protein L13 / Ribosomal protein L4/L1 family / Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A / Ribosomal prokaryotic L21 protein / Ribosomal protein L17 / Ribosomal protein L11, N-terminal domain / Ribosomal protein L17 / Mitochondrial ribosomal protein L51 / S25 / CI-B8 domain / Mitochondrial 39-S ribosomal protein L47 (MRP-L47) / 39S mitochondrial ribosomal protein L46 / LIM domain profile. / Cyclophilin-type peptidyl-prolyl cis-trans isomerase domain profile. / dnaJ domain profile. / Pentatricopeptide (PPR) repeat profile. / Ribosomal protein L9 / AMP-binding enzyme / Ribosomal protein L3 / Ribosomal protein L4/L1e / Translation protein, beta-barrel domain superfamily / Translation protein SH3-like domain superfamily / Ribosomal protein/NADH dehydrogenase domain / Ribosomal protein L13 / Ribosomal protein L20 / Ribosomal protein L15, bacterial-type / Ribosomal protein L22, bacterial/chloroplast-type / Ribosomal protein L24 / AMP-dependent synthetase/ligase / Pentatricopeptide repeat / Cyclophilin-type peptidyl-prolyl cis-trans isomerase domain / Ribosomal protein L21 / Zinc finger, LIM-type / DnaJ domain / Ribosomal protein L22/L17 / Ribosomal protein L11/L12 / Ribosomal protein L11, RNA binding domain / organellar large ribosomal subunit / mitochondrial mRNA editing complex / RNA polyadenylation / mitochondrial RNA processing / mitochondrial ribosome / mitochondrial large ribosomal subunit / mitochondrial translation / posttranscriptional regulation of gene expression / peptidylprolyl isomerase / peptidyl-prolyl cis-trans isomerase activity / catalytic activity / large ribosomal subunit / ribosomal large subunit assembly / protein folding
Function and homology information
SourceTrypanosoma brucei brucei (eukaryote)
Methodsingle particle reconstruction / cryo EM / 3.39 Å resolution
AuthorsRamrath DJF / Niemann M / Leibundgut M / Bieri P / Prange C / Horn K / Leitner A / Boehringer D / Schneider A / Ban N
CitationJournal: Science / Year: 2018
Title: Evolutionary shift toward protein-based architecture in trypanosomal mitochondrial ribosomes.
Authors: David J F Ramrath / Moritz Niemann / Marc Leibundgut / Philipp Bieri / Céline Prange / Elke K Horn / Alexander Leitner / Daniel Boehringer / André Schneider / Nenad Ban
Abstract: Ribosomal RNA (rRNA) plays key functional and architectural roles in ribosomes. Using electron microscopy, we determined the atomic structure of a highly divergent ribosome found in mitochondria of , ...Ribosomal RNA (rRNA) plays key functional and architectural roles in ribosomes. Using electron microscopy, we determined the atomic structure of a highly divergent ribosome found in mitochondria of , a unicellular parasite that causes sleeping sickness in humans. The trypanosomal mitoribosome features the smallest rRNAs and contains more proteins than all known ribosomes. The structure shows how the proteins have taken over the role of architectural scaffold from the rRNA: They form an autonomous outer shell that surrounds the entire particle and stabilizes and positions the functionally important regions of the rRNA. Our results also reveal the "minimal" set of conserved rRNA and protein components shared by all ribosomes that help us define the most essential functional elements.
Validation ReportPDB-ID: 6hix

SummaryFull reportAbout validation report
DateDeposition: Aug 31, 2018 / Header (metadata) release: Sep 26, 2018 / Map release: Sep 26, 2018 / Last update: Nov 7, 2018

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.1
  • Imaged by UCSF Chimera
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  • Surface view colored by height
  • Surface level: 0.1
  • Imaged by UCSF Chimera
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  • Surface view with fitted model
  • Atomic models: : PDB-6hix
  • Surface level: 0.1
  • Imaged by UCSF Chimera
  • Download
Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

Downloads & links

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Map

Fileemd_0231.map.gz (map file in CCP4 format, 131073 KB)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
320 pix
1.39 Å/pix.
= 444.8 Å
320 pix
1.39 Å/pix.
= 444.8 Å
320 pix
1.39 Å/pix.
= 444.8 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.39 Å
Density
Contour Level:0.1 (by author), 0.1 (movie #1):
Minimum - Maximum-0.036481377 - 0.1063719
Average (Standard dev.)0.0011892364 (0.007394422)
Details

EMDB XML:

Space Group Number1
Map Geometry
Axis orderXYZ
Dimensions320320320
Origin0.00.00.0
Limit319.0319.0319.0
Spacing320320320
CellA=B=C: 444.8 Å
α=β=γ: 90.0 deg.

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.391.391.39
M x/y/z320320320
origin x/y/z0.0000.0000.000
length x/y/z444.800444.800444.800
α/β/γ90.00090.00090.000
start NX/NY/NZ
NX/NY/NZ
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS320320320
D min/max/mean-0.2240.5360.002

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Supplemental data

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Sample components

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Entire large subunit of the T. brucei mitoribosome

EntireName: large subunit of the T. brucei mitoribosome / Number of components: 90

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Component #1: protein, large subunit of the T. brucei mitoribosome

ProteinName: large subunit of the T. brucei mitoribosome / Recombinant expression: No
MassExperimental: 1.9 MDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427

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Component #2: protein, bl27m

ProteinName: bl27m / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 21.793092 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #3: protein, bl28m

ProteinName: bl28m / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 28.051373 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #4: protein, ul29m

ProteinName: ul29m / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 54.045367 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #5: protein, ul30m

ProteinName: ul30m / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 25.204334 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #6: protein, bl31m

ProteinName: bl31m / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 21.083229 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #7: protein, bl32m

ProteinName: bl32m / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 9.74571 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #8: protein, bl33m

ProteinName: bl33m / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 13.04274 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #9: protein, bl35m

ProteinName: bl35m / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 21.661453 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #10: protein, bl36m

ProteinName: bl36m / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 21.795227 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #11: protein, Ribosomal protein L3 mitochondrial, putative

ProteinName: Ribosomal protein L3 mitochondrial, putativeRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 55.073699 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #12: protein, Ribosomal protein L4/L1 family, putative

ProteinName: Ribosomal protein L4/L1 family, putativeRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 53.156664 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #13: protein, bl9m

ProteinName: bl9m / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 31.032697 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #14: protein, ul10m

ProteinName: ul10m / Details: residues 106-129 built as polyalanines / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 20.283566 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #15: protein, Ribosomal protein L11, putative

ProteinName: Ribosomal protein L11, putativeRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 40.25275 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #16: protein, 50S ribosomal protein L13, putative

ProteinName: 50S ribosomal protein L13, putativeRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 24.341309 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #17: protein, ul15m

ProteinName: ul15m / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 43.780016 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #18: protein, 50S ribosomal protein L16, putative

ProteinName: 50S ribosomal protein L16, putativeRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 19.158145 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #19: protein, 50S ribosomal protein L17, putative

ProteinName: 50S ribosomal protein L17, putativeRibosome / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 35.117824 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #20: protein, bl19m

ProteinName: bl19m / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 16.931455 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #21: protein, bl20m

ProteinName: bl20m / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 24.393943 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #22: protein, bl21m

ProteinName: bl21m / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 20.895268 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #23: protein, ul22m

ProteinName: ul22m / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 32.083285 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #24: protein, ul23m

ProteinName: ul23m / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 28.822936 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #25: protein, ul24m

ProteinName: ul24m / Details: residues 313-340 built as polyalanines / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 43.999047 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #26: protein, ml38

ProteinName: ml38 / Details: residues 41-53 and 294-311 built as polyalanines / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 58.437895 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #27: protein, ml40

ProteinName: ml40 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 33.646066 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #28: protein, ml41

ProteinName: ml41 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 22.556877 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #29: protein, ml42

ProteinName: ml42 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 21.602639 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #30: protein, ml43

ProteinName: ml43 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 31.300406 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #31: protein, ml46

ProteinName: ml46 / Details: residues 149-159 built as polyalanines / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 33.984199 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #32: protein, ml49

ProteinName: ml49 / Details: residues 102-109 built as polyalanines / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 24.501486 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #33: protein, ml52

ProteinName: ml52 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 29.175984 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #34: protein, ml53

ProteinName: ml53 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 35.656383 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #35: protein, ml63

ProteinName: ml63 / Details: residues 64-73 built as polyalanines / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 18.213924 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #36: protein, ml64

ProteinName: ml64 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 28.545977 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #37: protein, bL12m

ProteinName: bL12m / Details: residues built as UNK / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 3.99837 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #38: protein, bL12m

ProteinName: bL12m / Details: residues built as UNK / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 2.008194 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #39: protein, bL12m

ProteinName: bL12m / Details: residues built as UNK / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 1.937116 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #40: nucleic-acid, 12S rRNA

Nucleic-acidName: 12S rRNAMT-RNR1 / Class: RNA / Structure: OTHER / Synthetic: No
Sequence:
AUUUUACCAA UUAAGAAGAA UAUUAUAAUA AUGGGUGUCU UAUAUUUUAA AUAAAUAUUU AAAUUCCGUG UAGUAAAUUU AUUAUUUGUA UUAUUUAUAU AAUAGGUGUA UUAUAUUUAA AUUUUAAAUU UGUUGUUUUA UAUUUAGAUA CAUAUUUAUA GAUUAAUAUA UUUAAAUAAU AUUUUAAAAU UUAUUGAACU GUAAUUAUUA GUUUAAUAUU UUUAGUUUGA UGUUGAAAUA UUUAAUUAAA GAUGUUACAG UUGUUCUAUA UGUACCAAAU AAAUAUAGUA AGAUUAUUUU AGUUGAAUUA AUAAAUAAAU AUUUAUUUUU CUUUGUAAAU AUUAUGAACA AUUUAAAAAU UAAUCUGUUU AACUAAAAUG UUAUAUAUAA UAAUCUAAGU UAAUUUGAAU AUUAAAAGUA CAAGUAUAAU UUGUAAUUCU AAAGUAUAUU AAUGGUAUAU UUUUAGUAGG UAAAUGAAAA GUAUAAAUGG AUAUAACUUA AUAUUUAAUA UUUGUUUAAU GAAAAGUAUU UUAUUAUUAU AUUGUAUAGU AUUAUUAUAG UGUAUAGUUU UUUAAAAAUA UAAAAAUAUU GUUAAUAAAA UUAUCGUAUU UUAAGUGCGU UAAUUAAAUG CGUUUAUCUA AGAUAAUUAU UUAAGAUUAU UCUUGUAAAU AUAUUUAAAU AUUAAUAAUU CUUAAAAUAA AGAAACAUCC UCAAUUGCAA UAUUAUUGUA GCAUAGUAAU UUCUUAACUA AGUAUUUAAU UUUUCCAUAG AAAAUUUUUA AAUUACAAGA AAGAAAAUAA AGUAUGAAUU AAUAUCAAAA UUUUAAUAAA AAUUAAAAAA UUAAAAUAGG GCAAGUCCUA CUCUCCUUUA CAAAAGAAAC AUUAUGAUAU GUAAUUGUAU GUUUGAUUGG GGCAAUACUA UAUUUAUUUA UAUAGCAUAA GAACUAUAUU CUUUGAAAUU AUAAAAGGUU CGAGCAGGUU AACAAGCAUU AAAAAUAAAU GUGUUUCAUC GUCUACUUAU UACCAUGAUU GAUUGUUCAU CAAAAUAGUA AUUCGUUAGU UGGGUUAAAA UCGUUGUAAA GCAGAUUUGU UUAUAUAUUU AAUUUUUAUA AUUAAUAAUA AUUAAUAUAA GUACGCAAGG AUUGAUUAUU GAAAAAAGAA AGAAGAAUAU AAUUUAUA
MassTheoretical: 376.7485 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427

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Component #41: protein, ml67

ProteinName: ml67 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 93.569273 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #42: protein, ml68

ProteinName: ml68 / Details: residues 264-343 built as polyalanines / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 62.806293 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #43: protein, ml69

ProteinName: ml69 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 59.010855 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #44: protein, mL70

ProteinName: mL70 / Details: residues built as polyalanines / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 62.44241 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #45: protein, ml71

ProteinName: ml71 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 50.313797 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #46: protein, ml72

ProteinName: ml72 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 49.407 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

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Component #47: protein, ml73

ProteinName: ml73 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 41.857875 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #48: protein, ml74

ProteinName: ml74 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 39.765176 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #49: protein, ml75

ProteinName: ml75 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 39.841617 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #50: protein, ml76

ProteinName: ml76 / Details: residues 168-176 built as polyalanines / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 39.638914 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #51: protein, Chaperone protein DNAj, putative

ProteinName: Chaperone protein DNAj, putative / Details: residues 248-281 built as polyalanines / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 43.819699 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #52: protein, ml78

ProteinName: ml78 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 35.104535 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #53: protein, ml79

ProteinName: ml79 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 33.079617 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #54: protein, ml80

ProteinName: ml80 / Details: residues 145-174 built as polyalanines / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 34.883273 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #55: protein, ml81

ProteinName: ml81 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 29.284467 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #56: protein, ml82

ProteinName: ml82 / Details: residues 153-162 built as polyalanines / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 29.283676 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #57: protein, Peptidyl-prolyl cis-trans isomerase

ProteinName: Peptidyl-prolyl cis-trans isomeraseProlyl isomerase / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 25.579004 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #58: protein, ml84

ProteinName: ml84 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 24.773643 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #59: protein, ml85

ProteinName: ml85 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 22.657951 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #60: protein, ml86

ProteinName: ml86 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 22.376191 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #61: protein, ml87

ProteinName: ml87 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 22.337521 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #62: protein, ml88

ProteinName: ml88 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 22.25559 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #63: protein, ml89

ProteinName: ml89 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 22.213406 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #64: protein, ml90

ProteinName: ml90 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 22.123414 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #65: protein, ml91

ProteinName: ml91 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 20.61852 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #66: protein, Peptidyl-prolyl cis-trans isomerase

ProteinName: Peptidyl-prolyl cis-trans isomeraseProlyl isomerase / Details: residues 46-64 built as polyalanines / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 20.542291 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #67: protein, ml93

ProteinName: ml93 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 18.929691 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #68: protein, ml94

ProteinName: ml94 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 17.830959 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #69: protein, ml95

ProteinName: ml95 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 17.803377 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #70: protein, ml96

ProteinName: ml96 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 16.387654 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #71: protein, ml97

ProteinName: ml97 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 12.974785 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #72: protein, ml98

ProteinName: ml98 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 12.968644 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #73: protein, ml99

ProteinName: ml99 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 12.334969 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #74: protein, ml100

ProteinName: ml100 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 10.600362 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #75: protein, UNK

ProteinName: UNK / Details: unassigned residues built as UNK / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 3.932839 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #76: protein, UNK

ProteinName: UNK / Details: unassigned residues built as UNK / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 3.422209 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #77: protein, UNK

ProteinName: UNK / Details: unassigned residues built as UNK / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 1.039273 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #78: protein, UNK

ProteinName: UNK / Details: unassigned residues built as UNK / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 15.081565 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #79: protein, UNK

ProteinName: UNK / Details: unassigned residues built as UNK / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 1.890321 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #80: protein, UNK

ProteinName: UNK / Details: unassigned residues built as UNK / Number of Copies: 3 / Recombinant expression: No
MassTheoretical: 2.060531 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #81: protein, UNK

ProteinName: UNK / Details: unassigned residues built as UNK / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 1.464797 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #82: protein, UNK

ProteinName: UNK / Details: unassigned residues built as UNK / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 0.869063 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #83: protein, UNK

ProteinName: UNK / Details: unassigned residues built as UNK / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 1.294587 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #84: protein, UNK

ProteinName: UNK / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 0.528644 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #85: protein, UNK

ProteinName: UNK / Details: unassigned residues built as UNK / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 0.954168 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #86: protein, UNK

ProteinName: UNK / Number of Copies: 2 / Recombinant expression: No
MassTheoretical: 0.698854 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #87: protein, UNK

ProteinName: UNK / Details: unassigned residues built as UNK / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 0.613749 kDa
SourceSpecies: Trypanosoma brucei brucei (eukaryote) / Strain: Lister 427
Source (engineered)Expression System: Trypanosoma brucei brucei (eukaryote)

+
Component #88: ligand, ZINC ION

LigandName: ZINC ION / Number of Copies: 6 / Recombinant expression: No
MassTheoretical: 6.540905 MDa

+
Component #89: ligand, NICOTINAMIDE-ADENINE-DINUCLEOTIDE

LigandName: NICOTINAMIDE-ADENINE-DINUCLEOTIDE / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 0.663425 kDa

+
Component #90: ligand, MAGNESIUM ION

LigandName: MAGNESIUM ION / Number of Copies: 7 / Recombinant expression: No
MassTheoretical: 2.430505 MDa

-
Experimental details

-
Sample preparation

SpecimenSpecimen state: particle / Method: cryo EM
Sample solutionpH: 7.4
VitrificationInstrument: FEI VITROBOT MARK IV / Cryogen name: OTHER / Temperature: 278 K / Humidity: 98 %

-
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: 4 e/Å2 / Illumination mode: FLOOD BEAM
LensImaging mode: BRIGHT FIELD
Specimen HolderModel: OTHER
CameraDetector: FEI FALCON III (4k x 4k)

-
Image processing

ProcessingMethod: single particle reconstruction / Number of projections: 31619
3D reconstructionAlgorithm: FOURIER SPACE / Software: RELION / Resolution: 3.39 Å / Resolution method: FSC 0.143 CUT-OFF

-
Atomic model buiding

Modeling #1Details: We used Coot and O ofr initial model building and refined the structure using PHENIX
Overall bvalue: 52.200000000000003
Output model

+
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