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sample_name:"Ubiquitin-60S ribosomal protein L40"

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EMD-19576

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CRYO-EM STRUCTURE OF LEISHMANIA MAJOR 80S RIBOSOME WITH A/P/E-site tRNA AND mRNA : PARENTAL STRAIN

Release date: May 15, 2024
Resolution: 2.93 Å
EM Method: Single-particle
Fitted PDBs: 8rxh
Q-score: 0.603

Rajan KS, Aryal S, Hiregange DG, Bashan A, Madmoni H, Olami M, Doniger T, Cohen-Chalamish S, Pescher P, Taoka M, Nobe Y, Fedorenko A, Bose T, Zimermann E, Prina E, Aharon-Hefetz N, Pilpel Y, Isobe T, Unger R, Spath GF, Yonath A, Michaeli S

Cell Rep (2024) 43 pp. 114203-114203 [ Pubmed: 38722744 DOI: doi:10.1016/j.celrep.2024.114203 ]

Sample:

Sr1_chain_3 (69 kDa, RNA from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l35 (15 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l21 (18 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l44 (12 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s21 (17 kDa, Protein from Leishmania major strain Friedlin)
Ssu_rrna_chain_s1 (710 kDa, RNA from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s17 (16 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s2 (28 kDa, Protein from Leishmania major strain Friedlin)
Guanine nucleotide-binding protein subunit beta-like protein (34 kDa, Protein from Leishmania major strain Friedlin)
Sr4_chain_5 (43 kDa, RNA from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l39 (6 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l22 (15 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s12 (15 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l2 (28 kDa, Protein from Leishmania major strain Friedlin)
Sr6_chain_6 (23 kDa, RNA from Leishmania major strain Friedlin)
Putative rna binding protein (25 kDa, Protein from Leishmania major strain Friedlin)
(2s)-2-[2-[4-[[(2r,3s,4s)-3-acetyloxy-4-oxidanyl-pyrrolidin-2-yl]methyl]phenoxy]ethanoylamino]-6-azanyl-hexanoic acid (437 Da, Ligand)
Putative 60s ribosomal protein l28 (16 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l17 (19 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l32 (15 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein sa (27 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s7 (23 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s15a (14 kDa, Protein from Leishmania major strain Friedlin)
Putative ribosomal protein l38 (9 kDa, Protein from Leishmania major strain Friedlin)
Lsub_rrna_chain_2 (492 kDa, RNA from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s13 (17 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l13 (24 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s14 (15 kDa, Protein from Leishmania major strain Friedlin)
P-site_trna_chain_s3 (24 kDa, RNA from Leishmania major strain Friedlin)
Lsua_rrna_chain_1 (577 kDa, RNA from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s33 (9 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l18 (22 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s27-1 (9 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l27a/l29 (16 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s25 (13 kDa, Protein from Leishmania major strain Friedlin)
Ribosomal protein l15 (24 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l26 (16 kDa, Protein from Leishmania major strain Friedlin)
Putative ribosomal protein l1a (41 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s15 (17 kDa, Protein from Leishmania major strain Friedlin)
Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Leishmania major strain Friedlin)
Sr2_chain_4 (59 kDa, RNA from Leishmania major strain Friedlin)
60s ribosomal protein l29 (8 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l19 (28 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l7a (29 kDa, Protein from Leishmania major strain Friedlin)
5s_rrna_chain_8 (39 kDa, RNA from Leishmania major strain Friedlin)
40s ribosomal protein s5 (21 kDa, Protein from Leishmania major strain Friedlin)
Ribosomal protein s17 family protein (20 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s8 (24 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s26 (12 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s23 (15 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l23a (16 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s3a (30 kDa, Protein from Leishmania major strain Friedlin)
Water (18 Da, Ligand)
Ubiquitin-60s ribosomal protein l40 (17 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l10 (24 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s16 (16 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l5 (34 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s30 (7 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s4 (30 kDa, Protein from Leishmania major strain Friedlin)
E-site_trna_chain_s4 (24 kDa, RNA from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l13a (25 kDa, Protein from Leishmania major strain Friedlin)
Putative ribosomal protein l24 (14 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s18 (17 kDa, Protein from Leishmania major strain Friedlin)
Sodium ion (22 Da, Ligand)
Putative 60s ribosomal protein l6 (21 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l7 (28 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l18a (20 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l27 (15 kDa, Protein from Leishmania major strain Friedlin)
Mrna_chain_s5 (4 kDa, RNA from Leishmania major strain Friedlin)
60s ribosomal protein l11 (21 kDa, Protein from Leishmania major strain Friedlin)
Zinc ion (65 Da, Ligand)
Putative 60s ribosomal protein l36 (11 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s10 (18 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l23 (14 kDa, Protein from Leishmania major strain Friedlin)
Putative ribosomal protein s20 (13 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l41 (4 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l9 (21 kDa, Protein from Leishmania major strain Friedlin)
Ribosomal protein l37 (9 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s3 (24 kDa, Protein from Leishmania major strain Friedlin)
Putative ribosomal protein l3 (47 kDa, Protein from Leishmania major strain Friedlin)
Potassium ion (39 Da, Ligand)
A-site_trna_chain_s2 (24 kDa, RNA from Leishmania major strain Friedlin)
Putative ribosomal protein l35a (16 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s9 (22 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein l14 (19 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l34 (19 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l37a (10 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal subunit protein l31 (21 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l30 (11 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s6 (28 kDa, Protein from Leishmania major strain Friedlin)
5.8s_rrna_chain_7 (54 kDa, RNA from Leishmania major strain Friedlin)
Magnesium ion (24 Da, Ligand)
40s ribosomal protein s19-like protein (18 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s24 (15 kDa, Protein from Leishmania major strain Friedlin)
Putative ribosomal protein s29 (6 kDa, Protein from Leishmania major strain Friedlin)
Cryo-em structure of leishmania major 80s ribosome with a/p/e-site trna and mrna (Complex from Leishmania major strain Friedlin)

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EMD-19582

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CRYO-EM STRUCTURE OF LEISHMANIA MAJOR 80S RIBOSOME WITH A/P/E-site tRNA AND mRNA : LM32Cs3H1 sKO STRAIN

Release date: May 15, 2024
Resolution: 2.97 Å
EM Method: Single-particle
Fitted PDBs: 8rxx
Q-score: 0.601

Cell Rep (2024) 43 pp. 114203-114203 [ Pubmed: 38722744 DOI: doi:10.1016/j.celrep.2024.114203 ]

Sample:

Sr1_chain_3 (69 kDa, RNA from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l35 (15 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l21 (18 kDa, Protein from Leishmania major strain Friedlin)
Lsua_rrna_chain_1 (577 kDa, RNA from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l44 (12 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s21 (17 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s17 (16 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s2 (28 kDa, Protein from Leishmania major strain Friedlin)
Guanine nucleotide-binding protein subunit beta-like protein (34 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l39 (6 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l22 (15 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s12 (15 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l2 (28 kDa, Protein from Leishmania major strain Friedlin)
Sr6_chain_6 (23 kDa, RNA from Leishmania major strain Friedlin)
Putative rna binding protein (25 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l28 (16 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l17 (19 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l32 (15 kDa, Protein from Leishmania major strain Friedlin)
Ssu_rrna_chain_s1 (710 kDa, RNA from Leishmania major strain Friedlin)
40s ribosomal protein sa (27 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s7 (23 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s15a (14 kDa, Protein from Leishmania major strain Friedlin)
Putative ribosomal protein l38 (9 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s13 (17 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l13 (24 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s14 (15 kDa, Protein from Leishmania major strain Friedlin)
P-site_trna_chain_s3 (24 kDa, RNA from Leishmania major strain Friedlin)
5s_rrna_chain_8 (39 kDa, RNA from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s33 (9 kDa, Protein from Leishmania major strain Friedlin)
80s ribosome with a/p/e-site trna and mrna (Complex from Leishmania major strain Friedlin)
60s ribosomal protein l18 (22 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s27-1 (9 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l27a/l29 (16 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s25 (13 kDa, Protein from Leishmania major strain Friedlin)
Ribosomal protein l15 (24 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l26 (16 kDa, Protein from Leishmania major strain Friedlin)
Putative ribosomal protein l1a (41 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s15 (17 kDa, Protein from Leishmania major strain Friedlin)
Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Leishmania major strain Friedlin)
Sr2_chain_4 (59 kDa, RNA from Leishmania major strain Friedlin)
60s ribosomal protein l29 (8 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l19 (28 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l7a (29 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s5 (21 kDa, Protein from Leishmania major strain Friedlin)
Ribosomal protein s17 family protein (20 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s8 (24 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s26 (12 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s23 (15 kDa, Protein from Leishmania major strain Friedlin)
Sr4_chain_5 (43 kDa, RNA from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l23a (16 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s3a (30 kDa, Protein from Leishmania major strain Friedlin)
Water (18 Da, Ligand)
Ubiquitin-60s ribosomal protein l40 (17 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l10 (24 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s16 (16 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l5 (34 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s30 (7 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s4 (30 kDa, Protein from Leishmania major strain Friedlin)
E-site_trna_chain_s4 (24 kDa, RNA from Leishmania major strain Friedlin)
Lsub_rrna_chain_2 (492 kDa, RNA from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l13a (25 kDa, Protein from Leishmania major strain Friedlin)
Putative ribosomal protein l24 (14 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s18 (17 kDa, Protein from Leishmania major strain Friedlin)
Sodium ion (22 Da, Ligand)
Putative 60s ribosomal protein l6 (21 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l7 (28 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l18a (20 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l27 (15 kDa, Protein from Leishmania major strain Friedlin)
Mrna_chain_s5 (4 kDa, RNA from Leishmania major strain Friedlin)
60s ribosomal protein l11 (21 kDa, Protein from Leishmania major strain Friedlin)
Zinc ion (65 Da, Ligand)
Putative 60s ribosomal protein l36 (11 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s10 (18 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l23 (14 kDa, Protein from Leishmania major strain Friedlin)
Putative ribosomal protein s20 (13 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l41 (4 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l9 (21 kDa, Protein from Leishmania major strain Friedlin)
Ribosomal protein l37 (9 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s3 (24 kDa, Protein from Leishmania major strain Friedlin)
Putative ribosomal protein l3 (47 kDa, Protein from Leishmania major strain Friedlin)
Potassium ion (39 Da, Ligand)
A-site_trna_chain_s2 (24 kDa, RNA from Leishmania major strain Friedlin)
Putative ribosomal protein l35a (16 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s9 (22 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein l14 (19 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l34 (19 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l37a (10 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal subunit protein l31 (21 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l30 (11 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s6 (28 kDa, Protein from Leishmania major strain Friedlin)
5.8s_rrna_chain_7 (54 kDa, RNA from Leishmania major strain Friedlin)
Magnesium ion (24 Da, Ligand)
40s ribosomal protein s19-like protein (18 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s24 (15 kDa, Protein from Leishmania major strain Friedlin)
Putative ribosomal protein s29 (6 kDa, Protein from Leishmania major strain Friedlin)

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EMD-17216

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CRYO-EM STRUCTURE OF LEISHMANIA MAJOR 80S RIBOSOME : PARENTAL STRAIN

Release date: May 8, 2024
Resolution: 2.4 Å
EM Method: Single-particle
Fitted PDBs: 8ovj
Q-score: 0.63

Cell Rep (2024) 43 pp. 114203-114203 [ Pubmed: 38722744 DOI: doi:10.1016/j.celrep.2024.114203 ]

Sample:

Sr1_chain_3 (69 kDa, RNA from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l35 (15 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l21 (18 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l44 (12 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s21 (17 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s17 (16 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s2 (28 kDa, Protein from Leishmania major strain Friedlin)
Guanine nucleotide-binding protein subunit beta-like protein (34 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l39 (6 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l22 (15 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s12 (15 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l2 (28 kDa, Protein from Leishmania major strain Friedlin)
Sr6_chain_6 (23 kDa, RNA from Leishmania major strain Friedlin)
Putative rna binding protein (25 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l28 (16 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l17 (19 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l32 (15 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein sa (27 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s7 (23 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s15a (14 kDa, Protein from Leishmania major strain Friedlin)
Putative ribosomal protein l38 (9 kDa, Protein from Leishmania major strain Friedlin)
Lsua_rrna_chain_1 (577 kDa, RNA from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s13 (17 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l13 (24 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s14 (15 kDa, Protein from Leishmania major strain Friedlin)
5s_rrna_chain_8 (39 kDa, RNA from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s33 (9 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l18 (22 kDa, Protein from Leishmania major strain Friedlin)
Ssu_rrna_chain_s1 (710 kDa, RNA from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s27-1 (9 kDa, Protein from Leishmania major strain Friedlin)
5.8s_rrna_chain_7 (54 kDa, RNA from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l27a/l29 (16 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s25 (13 kDa, Protein from Leishmania major strain Friedlin)
Lsub_rrna_chain_2 (492 kDa, RNA from Leishmania major strain Friedlin)
Ribosomal protein l15 (24 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l26 (16 kDa, Protein from Leishmania major strain Friedlin)
Putative ribosomal protein l1a (41 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s15 (17 kDa, Protein from Leishmania major strain Friedlin)
Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Leishmania major strain Friedlin)
E-site_trna_chain_s4 (6 kDa, RNA from Leishmania major strain Friedlin)
60s ribosomal protein l29 (8 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l19 (28 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l7a (29 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s5 (21 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s8 (24 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s26 (12 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s23 (15 kDa, Protein from Leishmania major strain Friedlin)
Sr4_chain_5 (43 kDa, RNA from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l23a (16 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s3a (30 kDa, Protein from Leishmania major strain Friedlin)
Water (18 Da, Ligand)
Putative 60s ribosomal protein l10 (24 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s16 (16 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l5 (34 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s30 (7 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s4 (30 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l13a (25 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s18 (17 kDa, Protein from Leishmania major strain Friedlin)
Putative ribosomal protein l24 (14 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s11 (20 kDa, Protein from Leishmania major strain Friedlin)
Sodium ion (22 Da, Ligand)
Putative 60s ribosomal protein l6 (21 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l7 (28 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l18a (20 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l27 (15 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l11 (21 kDa, Protein from Leishmania major strain Friedlin)
Zinc ion (65 Da, Ligand)
Putative 60s ribosomal protein l36 (11 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s10 (18 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l23 (14 kDa, Protein from Leishmania major strain Friedlin)
80s ribosome from leishmania major (Complex from Leishmania major strain Friedlin)
Putative ribosomal protein s20 (13 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l41 (4 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l9 (21 kDa, Protein from Leishmania major strain Friedlin)
Ribosomal protein l37 (9 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s3 (24 kDa, Protein from Leishmania major strain Friedlin)
Putative ribosomal protein l3 (47 kDa, Protein from Leishmania major strain Friedlin)
Potassium ion (39 Da, Ligand)
Sr2_chain_4 (59 kDa, RNA from Leishmania major strain Friedlin)
Putative ribosomal protein l35a (16 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein s9 (22 kDa, Protein from Leishmania major strain Friedlin)
Putative 40s ribosomal protein l14 (19 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal protein l34 (19 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l37a (10 kDa, Protein from Leishmania major strain Friedlin)
Putative 60s ribosomal subunit protein l31 (21 kDa, Protein from Leishmania major strain Friedlin)
60s ribosomal protein l30 (11 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s6 (28 kDa, Protein from Leishmania major strain Friedlin)
Magnesium ion (24 Da, Ligand)
40s ribosomal protein s19-like protein (18 kDa, Protein from Leishmania major strain Friedlin)
40s ribosomal protein s24 (15 kDa, Protein from Leishmania major strain Friedlin)
Putative ribosomal protein s29 (6 kDa, Protein from Leishmania major strain Friedlin)

[Show more]

EMD-16880

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60S ribosomal subunit bound to the E3-UFM1 complex - state 3 (native)

Release date: Feb. 21, 2024
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8ohd
Q-score: 0.531

DaRosa PA, Penchev I, Gumbin SC, Scavone F, Wachalska M, Paulo JA, Ordureau A, Peter JJ, Kulathu Y, Harper JW, Becker T, Beckmann R, Kopito RR

Nature (2024) 627 pp. 445-452 [ DOI: doi:10.1038/s41586-024-07073-0 Pubmed: 38383785 ]

Sample:

60s ribosomal protein l37a (10 kDa, Protein from Homo sapiens)
60s ribosomal protein l24 (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l11 (20 kDa, Protein from Homo sapiens)
60s ribosomal subunit in complex with e3-ufm1 ligase (Complex)
60s ribosomal protein l27 (15 kDa, Protein from Homo sapiens)
Eukaryotic translation initiation factor 6 (26 kDa, Protein from Homo sapiens)
60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l39 (6 kDa, Protein from Homo sapiens)
28s rrna (1 MDa, RNA from Homo sapiens)
5.8s rrna (50 kDa, RNA from Homo sapiens)
Zinc ion (65 Da, Ligand)
60s ribosomal protein l29 (17 kDa, Protein from Homo sapiens)
Ubiquitin-fold modifier 1 (9 kDa, Protein from Homo sapiens)
E3 ufm1-protein ligase 1 (Complex from Homo sapiens)
60s ribosomal protein l10a (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
60s ribosomal protein l37 (11 kDa, Protein from Homo sapiens)
60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
5s rrna (38 kDa, RNA from Homo sapiens)
60s ribosomal protein l6 (32 kDa, Protein from Homo sapiens)
60s ribosomal protein l19 (23 kDa, Protein from Homo sapiens)
60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l13 (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l22 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l8 (28 kDa, Protein from Homo sapiens)
60s ribosomal protein l36a (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l30 (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l5 (34 kDa, Protein from Homo sapiens)
60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
60s ribosomal protein l27a (16 kDa, Protein from Homo sapiens)
60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
E3 ufm1-protein ligase 1 (89 kDa, Protein from Homo sapiens)
60s ribosomal protein l38 (8 kDa, Protein from Homo sapiens)
Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
60s ribosomal protein l34 (13 kDa, Protein from Homo sapiens)
Ddrgk domain-containing protein 1 (35 kDa, Protein from Homo sapiens)
60s ribosomal subunit (Complex from Homo sapiens)
60s ribosomal protein l3 (46 kDa, Protein from Homo sapiens)
Ribosomal protein ul16-like (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
Cdk5 regulatory subunit-associated protein 3 (56 kDa, Protein from Homo sapiens)
60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
60s ribosomal protein l7 (29 kDa, Protein from Homo sapiens)
60s ribosomal protein l4 (47 kDa, Protein from Homo sapiens)

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EMD-16902

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60S ribosomal subunit bound to the E3-UFM1 complex - state 2 (native)

Release date: Feb. 21, 2024
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8oj0
Q-score: 0.463

DaRosa PA, Penchev I, Gumbin SC, Scavone F, Wachalska M, Paulo JA, Ordureau A, Peter JJ, Kulathu Y, Harper JW, Becker T, Beckmann R, Kopito RR

Nature (2024) 627 pp. 445-452 [ DOI: doi:10.1038/s41586-024-07073-0 Pubmed: 38383785 ]

Sample:

60s ribosomal protein l37a (10 kDa, Protein from Homo sapiens)
60s ribosomal protein l24 (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l11 (20 kDa, Protein from Homo sapiens)
60s ribosomal protein l27 (15 kDa, Protein from Homo sapiens)
Eukaryotic translation initiation factor 6 (26 kDa, Protein from Homo sapiens)
60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l39 (6 kDa, Protein from Homo sapiens)
5.8s rrna (50 kDa, RNA from Homo sapiens)
28s rrna (1 MDa, RNA from Homo sapiens)
Zinc ion (65 Da, Ligand)
60s ribosomal protein l29 (17 kDa, Protein from Homo sapiens)
Protein transport protein sec61 subunit gamma (7 kDa, Protein from Homo sapiens)
Ubiquitin-fold modifier 1 (9 kDa, Protein from Homo sapiens)
E3 ufm1-protein ligase 1 (Complex from Homo sapiens)
60s ribosomal protein l10a (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
60s ribosomal protein l34 (13 kDa, Protein from Homo sapiens environmental sample)
60s ribosomal protein l37 (11 kDa, Protein from Homo sapiens)
60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
5s rrna (38 kDa, RNA from Homo sapiens)
60s ribosomal protein l6 (32 kDa, Protein from Homo sapiens)
60s ribosomal protein l19 (23 kDa, Protein from Homo sapiens)
60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l13 (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l22 (14 kDa, Protein from Homo sapiens)
Protein transport protein sec61 subunit alpha isoform 1 (52 kDa, Protein from Homo sapiens)
60s ribosomal protein l8 (28 kDa, Protein from Homo sapiens)
60s ribosomal subunit bound to the e3-ufm1 complex and sec61 (Complex)
60s ribosomal protein l30 (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l36a (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l5 (34 kDa, Protein from Homo sapiens)
60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
60s ribosomal protein l27a (16 kDa, Protein from Homo sapiens)
60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
E3 ufm1-protein ligase 1 (89 kDa, Protein from Homo sapiens)
60s ribosomal protein l38 (8 kDa, Protein from Homo sapiens)
Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
Ddrgk domain-containing protein 1 (35 kDa, Protein from Homo sapiens)
60s ribosomal subunit (Complex from Homo sapiens)
60s ribosomal protein l3 (46 kDa, Protein from Homo sapiens)
Ribosomal protein ul16-like (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
Cdk5 regulatory subunit-associated protein 3 (56 kDa, Protein from Homo sapiens)
60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
Protein transport protein sec61 subunit beta (9 kDa, Protein from Homo sapiens)
60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
60s ribosomal protein l7 (29 kDa, Protein from Homo sapiens)
60s ribosomal protein l4 (47 kDa, Protein from Homo sapiens)

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EMD-16905

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60S ribosomal subunit bound to the E3-UFM1 complex - state 3 (in-vitro reconstitution)

Release date: Feb. 21, 2024
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8oj5
Q-score: 0.57

DaRosa PA, Penchev I, Gumbin SC, Scavone F, Wachalska M, Paulo JA, Ordureau A, Peter JJ, Kulathu Y, Harper JW, Becker T, Beckmann R, Kopito RR

Nature (2024) 627 pp. 445-452 [ DOI: doi:10.1038/s41586-024-07073-0 Pubmed: 38383785 ]

Sample:

60s ribosomal protein l37a (10 kDa, Protein from Homo sapiens)
E3-ufm1 complex bound to the 60s ribosome (Complex from Homo sapiens)
60s ribosomal protein l24 (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l11 (20 kDa, Protein from Homo sapiens)
60s ribosomal protein l27 (15 kDa, Protein from Homo sapiens)
60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l39 (6 kDa, Protein from Homo sapiens)
28s rrna (1 MDa, RNA from Homo sapiens)
5.8s rrna (50 kDa, RNA from Homo sapiens)
Zinc ion (65 Da, Ligand)
60s ribosomal protein l29 (17 kDa, Protein from Homo sapiens)
Ubiquitin-fold modifier 1 (9 kDa, Protein from Homo sapiens)
60s ribosomal protein l10a (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
60s ribosomal protein l37 (11 kDa, Protein from Homo sapiens)
60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
5s rrna (38 kDa, RNA from Homo sapiens)
60s ribosomal protein l6 (32 kDa, Protein from Homo sapiens)
60s ribosomal protein l19 (23 kDa, Protein from Homo sapiens)
60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l13 (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l22 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l8 (28 kDa, Protein from Homo sapiens)
60s ribosomal protein l36a (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l30 (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l5 (34 kDa, Protein from Homo sapiens)
60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
60s ribosomal protein l27a (16 kDa, Protein from Homo sapiens)
60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
E3 ufm1-protein ligase 1 (89 kDa, Protein from Homo sapiens)
60s ribosomal protein l38 (8 kDa, Protein from Homo sapiens)
Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
60s ribosomal protein l34 (13 kDa, Protein from Homo sapiens)
Ddrgk domain-containing protein 1 (35 kDa, Protein from Homo sapiens)
60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
60s ribosomal protein l3 (46 kDa, Protein from Homo sapiens)
Ribosomal protein ul16-like (24 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
Cdk5 regulatory subunit-associated protein 3 (56 kDa, Protein from Homo sapiens)
60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
60s ribosomal protein l7 (29 kDa, Protein from Homo sapiens)
60s ribosomal protein l4 (47 kDa, Protein from Homo sapiens)

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EMD-16908

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60S ribosomal subunit bound to the E3-UFM1 complex - state 1 (native)

Release date: Feb. 21, 2024
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8oj8
Q-score: 0.468

DaRosa PA, Penchev I, Gumbin SC, Scavone F, Wachalska M, Paulo JA, Ordureau A, Peter JJ, Kulathu Y, Harper JW, Becker T, Beckmann R, Kopito RR

Nature (2024) 627 pp. 445-452 [ DOI: doi:10.1038/s41586-024-07073-0 Pubmed: 38383785 ]

Sample:

60s ribosomal protein l37a (10 kDa, Protein from Homo sapiens)
60s ribosomal protein l24 (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l11 (20 kDa, Protein from Homo sapiens)
60s ribosomal protein l27 (15 kDa, Protein from Homo sapiens)
Eukaryotic translation initiation factor 6 (26 kDa, Protein from Homo sapiens)
60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l39 (6 kDa, Protein from Homo sapiens)
5.8s rrna (50 kDa, RNA from Homo sapiens)
28s rrna (1 MDa, RNA from Homo sapiens)
Zinc ion (65 Da, Ligand)
60s ribosomal protein l29 (17 kDa, Protein from Homo sapiens)
Protein transport protein sec61 subunit gamma (7 kDa, Protein from Homo sapiens)
E3 ufm1-protein ligase 1 (Complex from Homo sapiens)
60s ribosomal protein l10a (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
60s ribosomal protein l37 (11 kDa, Protein from Homo sapiens)
60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
Protein transport protein sec61 subunit alpha isoform 1 (52 kDa, Protein from Homo sapiens)
60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
5s rrna (38 kDa, RNA from Homo sapiens)
60s ribosomal protein l6 (32 kDa, Protein from Homo sapiens)
60s ribosomal protein l19 (23 kDa, Protein from Homo sapiens)
60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l13 (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l22 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l8 (28 kDa, Protein from Homo sapiens)
60s ribosomal protein l36a (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l30 (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l5 (34 kDa, Protein from Homo sapiens)
60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
60s ribosomal subunit in complex with e3-ufm1 ligase, state 1 (Complex)
60s ribosomal protein l27a (16 kDa, Protein from Homo sapiens)
60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
E3 ufm1-protein ligase 1 (89 kDa, Protein from Homo sapiens)
60s ribosomal protein l38 (8 kDa, Protein from Homo sapiens)
Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
60s ribosomal protein l34 (13 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
60s ribosomal subunit (Complex from Homo sapiens)
60s ribosomal protein l3 (46 kDa, Protein from Homo sapiens)
Ribosomal protein ul16-like (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
Protein transport protein sec61 subunit beta (9 kDa, Protein from Homo sapiens)
60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
60s ribosomal protein l7 (29 kDa, Protein from Homo sapiens)
60s ribosomal protein l4 (47 kDa, Protein from Homo sapiens)

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EMD-18382

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UFL1 E3 ligase bound 60S ribosome

Release date: Feb. 21, 2024
Resolution: 2.2 Å
EM Method: Single-particle
Fitted PDBs: 8qfd
Q-score: 0.684

Makhlouf L, Peter JJ, Magnussen HM, Thakur R, Millrine D, Minshull TC, Harrison G, Varghese J, Lamoliatte F, Foglizzo M, Macartney T, Calabrese AN, Zeqiraj E, Kulathu Y

Nature (2024) 627 pp. 437-444 [ DOI: doi:10.1038/s41586-024-07093-w Pubmed: 38383789 ]

Sample:

60s ribosomal protein l37a (10 kDa, Protein from Homo sapiens)
60s ribosomal protein l24 (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l11 (20 kDa, Protein from Homo sapiens)
60s ribosomal protein l27 (15 kDa, Protein from Homo sapiens)
60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l39 (6 kDa, Protein from Homo sapiens)
5.8s rrna (50 kDa, RNA from Homo sapiens)
Zinc ion (65 Da, Ligand)
60s ribosomal protein l29 (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
28s rrna (1 MDa, RNA from Homo sapiens)
60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
Water (18 Da, Ligand)
Ribosomal protein l37 (11 kDa, Protein from Homo sapiens)
60s ribosomal protein l6 (32 kDa, Protein from Homo sapiens)
60s ribosomal protein l19 (23 kDa, Protein from Homo sapiens)
60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
60s ribosome bound by the ufm1 ribosome e3 ligase complex. (Complex from Homo sapiens)
Large ribosomal subunit protein ul30 (29 kDa, Protein from Homo sapiens)
Ufm1 ribosome e3 ligase complex (Complex from Homo sapiens)
60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l13 (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l22 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l8 (28 kDa, Protein from Homo sapiens)
60s ribosomal protein l36a (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l30 (12 kDa, Protein from Homo sapiens)
E3 ufm1-protein ligase 1 (91 kDa, Protein from Homo sapiens)
60s ribosomal protein l5 (34 kDa, Protein from Homo sapiens)
60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
60s ribosomal protein l27a (16 kDa, Protein from Homo sapiens)
60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l10 (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l38 (8 kDa, Protein from Homo sapiens)
Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Homo sapiens)
5s rrna (38 kDa, RNA from Homo sapiens)
60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
60s ribosomal protein l34 (13 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
60s ribosomal protein l3 (46 kDa, Protein from Homo sapiens)
60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
60s ribosomal protein l4 (47 kDa, Protein from Homo sapiens)

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EMD-35414

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Arbekacin-added human 80S ribosome

Release date: Feb. 14, 2024
Resolution: 2.57 Å
EM Method: Single-particle
Fitted PDBs: 8ife
Q-score: 0.53

Tomono J, Asano K, Chiashi T, Suzuki M, Igarashi M, Takahashi Y, Tanaka Y, Yokoyama T

J.Biochem. (2024) [ DOI: doi:10.1093/jb/mvae002 Pubmed: 38227611 ]

Sample:

60s ribosomal protein l24 (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l41 (3 kDa, Protein from Homo sapiens)
40s ribosomal protein s26 (13 kDa, Protein from Homo sapiens)
60s ribosomal protein l10a (24 kDa, Protein from Homo sapiens)
40s ribosomal protein s20 (13 kDa, Protein from Homo sapiens)
60s ribosomal protein l4 (47 kDa, Protein from Homo sapiens)
60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
40s ribosomal protein s15 (17 kDa, Protein from Homo sapiens)
40s ribosomal protein s25 (13 kDa, Protein from Homo sapiens)
40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
60s ribosomal protein l22 (14 kDa, Protein from Homo sapiens)
40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
40s ribosomal protein s9 (22 kDa, Protein from Homo sapiens)
60s ribosomal protein l34 (13 kDa, Protein from Homo sapiens)
40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
40s ribosomal protein s19 (16 kDa, Protein from Homo sapiens)
60s ribosomal protein l27 (15 kDa, Protein from Homo sapiens)
60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
40s ribosomal protein s3a (30 kDa, Protein from Homo sapiens)
40s ribosomal protein s3 (26 kDa, Protein from Homo sapiens)
60s ribosomal protein l37 (11 kDa, Protein from Homo sapiens)
60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
60s ribosomal protein l30 (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l27a (16 kDa, Protein from Homo sapiens)
60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l10-like (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
40s ribosomal protein s23 (15 kDa, Protein from Homo sapiens)
40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
40s ribosomal protein s21 (9 kDa, Protein from Homo sapiens)
40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
60s ribosomal protein l7 (29 kDa, Protein from Homo sapiens)
5.8s ribosomal rna (50 kDa, RNA from Homo sapiens)
60s ribosomal protein l11 (20 kDa, Protein from Homo sapiens)
60s ribosomal protein l39 (6 kDa, Protein from Homo sapiens)
60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
Abk-bound human 80s ribosome (4 MDa, Complex from Homo sapiens)
40s ribosomal protein s2 (31 kDa, Protein from Homo sapiens)
Receptor of activated protein c kinase 1 (35 kDa, Protein from Homo sapiens)
40s ribosomal protein s30 (6 kDa, Protein from Homo sapiens)
60s ribosomal protein l36a (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l5 (34 kDa, Protein from Homo sapiens)
60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
60s ribosomal protein l38 (8 kDa, Protein from Homo sapiens)
40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
40s ribosomal protein s18 (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l37a (10 kDa, Protein from Homo sapiens)
40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
60s ribosomal protein l29 (17 kDa, Protein from Homo sapiens)
Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Homo sapiens)
40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
60s ribosomal protein l6 (32 kDa, Protein from Homo sapiens)
60s ribosomal protein l19 (23 kDa, Protein from Homo sapiens)
60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)
5s ribosomal rna (38 kDa, RNA from Homo sapiens)
40s ribosomal protein s29 (6 kDa, Protein from Homo sapiens)
60s ribosomal protein l13 (24 kDa, Protein from Homo sapiens)
40s ribosomal protein s10 (18 kDa, Protein from Homo sapiens)
60s ribosomal protein l8 (28 kDa, Protein from Homo sapiens)
28s ribosomal rna (1 MDa, RNA from Homo sapiens)
40s ribosomal protein sa (32 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
60s ribosomal protein l3 (46 kDa, Protein from Homo sapiens)
Arbekacin (552 Da, Ligand)
60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
18s ribosomal rna (602 kDa, RNA from Homo sapiens)
Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Homo sapiens)

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EMD-36178

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Structure of the Human cytoplasmic Ribosome with human tRNA Asp(Q34) and mRNA(GAU)

Release date: Dec. 6, 2023
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 8jdj
Q-score: 0.594

Zhao X, Ma D, Ishiguro K, Saito H, Akichika S, Matsuzawa I, Mito M, Irie T, Ishibashi K, Wakabayashi K, Sakaguchi Y, Yokoyama T, Mishima Y, Shirouzu M, Iwasaki S, Suzuki T, Suzuki T

Cell (2023) 186 pp. 5517- [ Pubmed: 37992713 DOI: doi:10.1016/j.cell.2023.10.026 ]

Sample:

60s ribosomal protein l24 (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l41 (3 kDa, Protein from Homo sapiens)
40s ribosomal protein s26 (13 kDa, Protein from Homo sapiens)
5s ribosomal rna (38 kDa, RNA from Homo sapiens)
40s ribosomal protein s20 (13 kDa, Protein from Homo sapiens)
60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
40s ribosomal protein s15 (17 kDa, Protein from Homo sapiens)
40s ribosomal protein s25 (13 kDa, Protein from Homo sapiens)
40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
60s ribosomal protein l22 (14 kDa, Protein from Homo sapiens)
40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
28s ribosomal rna (1 MDa, RNA from Homo sapiens)
40s ribosomal protein s9 (22 kDa, Protein from Homo sapiens)
60s ribosomal protein l34 (13 kDa, Protein from Homo sapiens)
60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
The complex of human 80s ribosome with mrna and a-, p- site trna (Complex from Homo sapiens)
40s ribosomal protein s19 (16 kDa, Protein from Homo sapiens)
60s ribosomal protein l27 (15 kDa, Protein from Homo sapiens)
60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
40s ribosomal protein s3a (30 kDa, Protein from Homo sapiens)
40s ribosomal protein s3 (26 kDa, Protein from Homo sapiens)
60s ribosomal protein l37 (11 kDa, Protein from Homo sapiens)
60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
60s ribosomal protein l30 (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l27a (16 kDa, Protein from Homo sapiens)
60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l10-like (24 kDa, Protein from Homo sapiens)
60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
40s ribosomal protein s23 (15 kDa, Protein from Homo sapiens)
40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
40s ribosomal protein s21 (9 kDa, Protein from Homo sapiens)
40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
Trna(asp) (24 kDa, RNA from Homo sapiens)
60s ribosomal protein l7 (29 kDa, Protein from Homo sapiens)
Mrna (4 kDa, RNA from Homo sapiens)
60s ribosomal protein l11 (20 kDa, Protein from Homo sapiens)
60s ribosomal protein l39 (6 kDa, Protein from Homo sapiens)
60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
40s ribosomal protein s2 (31 kDa, Protein from Homo sapiens)
Receptor of activated protein c kinase 1 (35 kDa, Protein from Homo sapiens)
40s ribosomal protein s30 (6 kDa, Protein from Homo sapiens)
60s ribosomal protein l36a (12 kDa, Protein from Homo sapiens)
60s ribosomal protein l5 (34 kDa, Protein from Homo sapiens)
60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
60s ribosomal protein l38 (8 kDa, Protein from Homo sapiens)
Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Homo sapiens)
40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
40s ribosomal protein s18 (17 kDa, Protein from Homo sapiens)
60s ribosomal protein l37a (10 kDa, Protein from Homo sapiens)
40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
60s ribosomal protein l29 (17 kDa, Protein from Homo sapiens)
40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
60s ribosomal protein l6 (32 kDa, Protein from Homo sapiens)
60s ribosomal protein l19 (23 kDa, Protein from Homo sapiens)
60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)
40s ribosomal protein s29 (6 kDa, Protein from Homo sapiens)
60s ribosomal protein l13 (24 kDa, Protein from Homo sapiens)
40s ribosomal protein s10 (18 kDa, Protein from Homo sapiens)
60s ribosomal protein l8 (28 kDa, Protein from Homo sapiens)
40s ribosomal protein sa (32 kDa, Protein from Homo sapiens)
5.8s ribosomal rna (50 kDa, RNA from Homo sapiens)
18s ribosomal rna (603 kDa, RNA from Homo sapiens)
Magnesium ion (24 Da, Ligand)
60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
60s ribosomal protein l3 (46 kDa, Protein from Homo sapiens)
60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
60s ribosomal protein l4 (47 kDa, Protein from Homo sapiens)

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