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EMBL

was set up in 1974 as Europe’s flagship laboratory for the life sciences – an intergovernmental organisation with more than 80 independent research groups covering the spectrum of molecular biology:

Research:

perform basic research in molecular biology

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offer vital services to scientists in the member states

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scientists, students and visitors at all levels

Transfer

and development of technology

Develop

new instruments and methods

Integrating

life science research in Europe

More about EMBL

Six sites

represent EMBL in Europe.

Barcelona

Tissue biology and disease modelling

Grenoble

Structural biology

Hamburg

Structural biology

Heidelberg

Main laboratory

Hinxton

EMBL-EBI: European Bioinformatics Institute

Rome

Epigenetics and neurobiology

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sample_name:"50S ribosomal protein L33" AND author_name:"Paleskava A" AND sample_type:"rna" AND structure_determination_method:"singleparticle" AND resolution:[2 TO 3}

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EMD-28197

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Escherichia coli 70S ribosome bound to thermorubin, deacylated P-site tRNAfMet and aminoacylated A-site Phe-tRNA

Release date: Dec. 7, 2022
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8ekc
Q-score: 0.553

Paranjpe MN, Marina VI, Grachev AA, Maviza TP, Tolicheva OA, Paleskava A, Osterman IA, Sergiev PV, Konevega AL, Polikanov YS, Gagnon MG

Nucleic Acids Res (2023) 51 pp. 449-462 [ Pubmed: 36546783 DOI: doi:10.1093/nar/gkac1189 ]

Sample:

16s ribosomal rna (499 kDa, RNA from Escherichia coli)
50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli)
50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli)
30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli)
50s ribosomal protein l15 (14 kDa, Protein from Escherichia coli)
50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
5s ribosomal rna (38 kDa, RNA from Escherichia coli)
50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli)
30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli)
50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli)
Magnesium ion (24 Da, Ligand)
50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli)
30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli)
A-site phenylalanine trna (24 kDa, RNA from Escherichia coli)
23s ribosomal rna (941 kDa, RNA from Escherichia coli)
50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli)
50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
M-f-stop mrna (7 kDa, RNA from Escherichia phage T4)
50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
Escherichia coli 70s ribosome bound to thermorubin, deacylated p-site trnafmet and aminoacylated a-site phe-trna (2 MDa, Complex from Escherichia coli)
50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
P-site initiator trna (24 kDa, RNA from Escherichia coli)
50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
Phenylalanine (165 Da, Ligand)
Zinc ion (65 Da, Ligand)
30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli)
50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli)
Thermorubin (600 Da, Ligand)
30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
30s ribosomal protein s3 (26 kDa, Protein from Escherichia coli)
30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli)
Water (18 Da, Ligand)
Ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
30s ribosomal protein s7 (17 kDa, Protein from Escherichia coli)
30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli)
30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli)
50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli)
50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)

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EMD-10656

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E. coli 70S ribosome in complex with dirithromycin, and deacylated tRNA(iMet) (focused classification).

Release date: Nov. 4, 2020
Resolution: 2.66 Å
EM Method: Single-particle
Fitted PDBs: 6xza
Q-score: 0.412

Pichkur EB, Paleskava A, Tereshchenkov AG, Kasatsky P, Komarova ES, Shiriaev DI, Bogdanov AA, Dontsova OA, Osterman IA, Sergiev PV, Polikanov YS, Myasnikov AG, Konevega AL

RNA (2020) 26 pp. 715-723 [ Pubmed: 32144191 DOI: doi:10.1261/rna.073817.119 ]

Sample:

50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s3 (23 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s5 (16 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s11 (12 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli K-12)
Deacylated trnai(met) (24 kDa, RNA from Escherichia coli K-12)
50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l28 (8 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s19 (9 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli K-12)
Dirithromycin (835 Da, Ligand)
50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l27 (8 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l10 (14 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l23 (10 kDa, Protein from Escherichia coli K-12)
16s rrna (497 kDa, RNA from Escherichia coli K-12)
30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s6 (12 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l33 (5 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s18 (6 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s21 (6 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s2 (24 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s7 (16 kDa, Protein from Escherichia coli K-12)
E. coli 70s ribosome in complex with dirithromycin and deacylated trna(imet). (2 MDa, Complex from Escherichia coli (strain K12))
50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l11 (14 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s13 (12 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli K-12)
5s rrna (38 kDa, RNA from Escherichia coli K-12)
23s rrna (939 kDa, RNA from Escherichia coli K-12)

[Show more]

EMD-10657

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E. coli 70S ribosome in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet) (focused classification).

Release date: Nov. 4, 2020
Resolution: 2.54 Å
EM Method: Single-particle
Fitted PDBs: 6xzb
Q-score: 0.432

Pichkur EB, Paleskava A, Tereshchenkov AG, Kasatsky P, Komarova ES, Shiriaev DI, Bogdanov AA, Dontsova OA, Osterman IA, Sergiev PV, Polikanov YS, Myasnikov AG, Konevega AL

RNA (2020) 26 pp. 715-723 [ Pubmed: 32144191 DOI: doi:10.1261/rna.073817.119 ]

Sample:

E. coli 70s ribosome (Complex from Escherichia coli (strain K12))
30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l23 (10 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l10 (14 kDa, Protein from Escherichia coli (strain K12))
Deacylated trnai(met) (24 kDa, RNA from Escherichia coli K-12)
30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l27 (8 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli (strain K12))
E. coli 70s ribosome in complex with dirithromycin, fmet-phe-trna(phe) and deacylated trna(imet). (2 MDa, Complex)
50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l11 (14 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l33 (5 kDa, Protein from Escherichia coli (strain K12))
Dirithromycin (835 Da, Ligand)
50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l28 (8 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s11 (12 kDa, Protein from Escherichia coli (strain K12))
16s rrna (497 kDa, RNA from Escherichia coli K-12)
30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s3 (23 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s2 (24 kDa, Protein from Escherichia coli (strain K12))
5s rrna (38 kDa, RNA from Escherichia coli K-12)
30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli (strain K12))
Fmet-phe-trna(phe) (25 kDa, RNA from Saccharomyces cerevisiae)
30s ribosomal protein s13 (12 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s21 (6 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s19 (9 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s5 (16 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s7 (16 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s18 (6 kDa, Protein from Escherichia coli (strain K12))
Fmet-phe-trna(phe) (Complex from Saccharomyces cerevisiae)
50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s6 (12 kDa, Protein from Escherichia coli (strain K12))
23s rrna (939 kDa, RNA from Escherichia coli K-12)

[Show more]

EMD-10655

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E. coli 50S ribosomal subunit in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet).

Release date: July 22, 2020
Resolution: 2.1 Å
EM Method: Single-particle
Fitted PDBs: 6xz7
Q-score: 0.643

Pichkur EB, Paleskava A, Tereshchenkov AG, Kasatsky P, Komarova ES, Shiriaev DI, Bogdanov AA, Dontsova OA, Osterman IA, Sergiev PV, Polikanov YS, Myasnikov AG, Konevega AL

RNA (2020) 26 pp. 715-723 [ Pubmed: 32144191 DOI: doi:10.1261/rna.073817.119 ]

Sample:

50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l23 (10 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l10 (14 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli (strain K12))
E. coli 50s ribosomal subunit (Complex from Escherichia coli (strain K12))
Fmet-phe-trna(phe) (25 kDa, RNA from baker's yeast)
50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l27 (8 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli (strain K12))
5s rrna (38 kDa, RNA from Escherichia coli (strain K12))
50s ribosomal protein l11 (14 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l33 (5 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli (strain K12))
23s rrna (939 kDa, RNA from Escherichia coli (strain K12))
50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli (strain K12))
Water (18 Da, Ligand)
50s ribosomal protein l28 (8 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli (strain K12))
Deacylated trnai(met) (24 kDa, RNA from Escherichia coli (strain K12))
Magnesium ion (24 Da, Ligand)
50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli (strain K12))
Dirithromycin (835 Da, Ligand)
E. coli 50s ribosomal subunit in complex with dirithromycin, fmet-phe-trna(phe) and deacylated trna(imet). (2 MDa, Complex from Escherichia coli (strain K12))
Fmet-phe-trna(phe) (Complex from Saccharomyces cerevisiae)
50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli (strain K12))

[Show more]

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Showing 1 - 4 of 4. Page 1 of 1

Display: Statistics

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Select database:

EMDB [4]

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Select the script type:

Shell (Unix-based) Batch (Windows-based)

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