Electron Microscopy Data Bank

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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:

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

[Show more]

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:

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

[Show more]

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:

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

[Show more]

EMD-36331

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Atomic structure of wheat ribosome reveals unique features of the plant ribosomes

Release date: March 27, 2024
Resolution: 2.84 Å
EM Method: Single-particle
Fitted PDBs: 8jiv
Q-score: 0.649

Mishra RK, Sharma P, Khaja FT, Uday AB, Hussain T

Structure (2024) 32 pp. 562- [ Pubmed: 38458197 DOI: doi:10.1016/j.str.2024.02.006 ]

Sample:

5s rrna (38 kDa, RNA from Triticum aestivum)
Ribosomal protein l18e/l15p domain-containing protein (21 kDa, Protein from Triticum aestivum)
Ribosomal protein l3 (44 kDa, Protein from Triticum aestivum)
Genome assembly, chromosome: ii (16 kDa, Protein from Triticum aestivum)
60s ribosomal protein l36 (12 kDa, Protein from Triticum aestivum)
Ubiquitin-like domain-containing protein (14 kDa, Protein from Triticum aestivum)
60s ribosomal protein l37a, expressed (10 kDa, Protein from Triticum aestivum)
Ribosomal protein l18e/l15p domain-containing protein (16 kDa, Protein from Triticum aestivum)
Ribosomal l28e/mak16 domain-containing protein (16 kDa, Protein from Triticum aestivum)
60s ribosomal protein l13 (24 kDa, Protein from Triticum aestivum)
Ribosomal protein l13a (23 kDa, Protein from Triticum aestivum)
Ribosomal protein l6 alpha-beta domain-containing protein (21 kDa, Protein from Triticum aestivum)
Genome assembly, chromosome: ii (12 kDa, Protein from Triticum aestivum)
60s ribosomal protein l21 (18 kDa, Protein from Triticum aestivum)
Potassium ion (39 Da, Ligand)
60s ribosomal protein l7a (29 kDa, Protein from Triticum aestivum)
60s ribosomal protein l31 (14 kDa, Protein from Triticum aestivum)
Magnesium ion (24 Da, Ligand)
The large subunit of wheat ribosome (Complex from Triticum aestivum)
Ribosomal protein l7ae/l30e/s12e/gadd45 domain-containing protein (12 kDa, Protein from Triticum aestivum)
60s ribosomal protein l29 (6 kDa, Protein from Triticum aestivum)
60s ribosomal protein l27 (15 kDa, Protein from Triticum aestivum)
60s ribosomal protein ul22 (19 kDa, Protein from Triticum aestivum)
60s ribosomal protein l38 (8 kDa, Protein from Triticum aestivum)
5.8s rrna (50 kDa, RNA from Triticum aestivum)
60s ribosomal protein l34 (13 kDa, Protein from Triticum aestivum)
25s rrna (1 MDa, RNA from Triticum aestivum)
Ribosomal protein l5 eukaryotic c-terminal domain-containing protein (35 kDa, Protein from Triticum aestivum)
60s ribosomal protein l4 c-terminal domain-containing protein (44 kDa, Protein from Triticum aestivum)
60s ribosomal protein l35 (14 kDa, Protein from Triticum aestivum)
60s ribosomal protein el32 (15 kDa, Protein from Triticum aestivum)
Ribosomal protein l19 (24 kDa, Protein from Triticum aestivum)
Kow domain-containing protein (14 kDa, Protein from Triticum aestivum)
Ribosomal protein l37 (10 kDa, Protein from Triticum aestivum)
Zinc ion (65 Da, Ligand)
60s ribosomal protein l11 (20 kDa, Protein from Triticum aestivum)
Ribosomal protein l14e domain-containing protein (15 kDa, Protein from Triticum aestivum)
Genome assembly, chromosome: ii (14 kDa, Protein from Triticum aestivum)
Ribosomal protein l17 (14 kDa, Protein from Triticum aestivum)
60s ribosomal protein ul30 (28 kDa, Protein from Triticum aestivum)
60s ribosomal protein l18a (21 kDa, Protein from Triticum aestivum)
Trash domain-containing protein (18 kDa, Protein from Triticum aestivum)
60s ribosomal protein el33 (12 kDa, Protein from Triticum aestivum)
60s ribosomal protein l6 (25 kDa, Protein from Triticum aestivum)
Ribosomal protein l15 (24 kDa, Protein from Triticum aestivum)
Ribosomal protein l39 (6 kDa, Protein from Triticum aestivum)
Ribosomal protein l10e/l16 domain-containing protein (24 kDa, Protein from Triticum aestivum)
Ribosomal protein l2 c-terminal domain-containing protein (28 kDa, Protein from Triticum aestivum)

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

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EMD-17004

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Chaetomium thermophilum Methionine Aminopeptidase 2 autoproteolysis product at the 80S ribosome

Release date: Feb. 21, 2024
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8oo0
Q-score: 0.494

Klein MA, Wild K, Kisonaite M, Sinning I

Nat Commun (2024) 15 pp. 716-716 [ DOI: doi:10.1038/s41467-024-44862-7 Pubmed: 38267453 ]

Sample:

60s ribosomal protein l30-like protein (11 kDa, Protein from Thermochaetoides thermophila)
18s rrna (578 kDa, RNA from Thermochaetoides thermophila DSM 1495)
60s ribosomal protein l26-like protein (15 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s5-like protein (23 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l32-like protein (15 kDa, Protein from Thermochaetoides thermophila)
5s rrna (38 kDa, RNA from Thermochaetoides thermophila DSM 1495)
28s rrna (1 MDa, RNA from Thermochaetoides thermophila)
40s ribosomal protein s19-like protein (17 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l29 (7 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l4-like protein (39 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l13 (24 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l23-like protein (14 kDa, Protein from Thermochaetoides thermophila)
Putative ribosomal protein (20 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s15-like protein (17 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l14-like protein (16 kDa, Protein from Thermochaetoides thermophila)
Putative guanine nucleotide-binding protein (35 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l41-a (3 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s23-like protein (15 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l5-like protein (35 kDa, Protein from Thermochaetoides thermophila)
Map2 autoproteolysis product in complex with the 80s ribosome (Complex from Thermochaetoides thermophila)
40s ribosomal protein s11-like protein (18 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l10-like protein (25 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s30 (6 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s21-like protein (10 kDa, Protein from Thermochaetoides thermophila)
Hyaluronan/mrna-binding protein domain-containing protein (32 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s22-like protein (14 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l44-like protein (12 kDa, Protein from Thermochaetoides thermophila)
Ribosomal protein l15 (24 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l2-like protein (27 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l33-like protein (12 kDa, Protein from Thermochaetoides thermophila)
Ubiquitin-like domain-containing protein (14 kDa, Protein from Thermochaetoides thermophila)
Putative ribosomal protein (17 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l21-like protein (18 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s24 (15 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s2-like protein (28 kDa, Protein from Thermochaetoides thermophila)
Ribosomal protein l18-like protein (24 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l38 (9 kDa, Protein from Thermochaetoides thermophila)
Dolichyl-diphosphooligosaccharide--protein glycotransferase (14 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s17-like protein (16 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s28-like protein (7 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l16-like protein (23 kDa, Protein from Thermochaetoides thermophila)
Methionine aminopeptidase 2 (41 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l9-like protein (21 kDa, Protein from Thermochaetoides thermophila)
Putative 60s ribosomal protein (15 kDa, Protein from Thermochaetoides thermophila)
5.8s rrna (50 kDa, RNA from Thermochaetoides thermophila DSM 1495)
40s ribosomal protein s8 (23 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s16-like protein (15 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l36 (12 kDa, Protein from Thermochaetoides thermophila)
Ribosomal protein s27-like protein (8 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l27 (15 kDa, Protein from Thermochaetoides thermophila)
60s acidic ribosomal protein p0 (33 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s10-like protein (18 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s4 (29 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l8 (29 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l20 (20 kDa, Protein from Thermochaetoides thermophila)
Putative 60s ribosomal protein (13 kDa, Protein from Thermochaetoides thermophila)
Zinc ion (65 Da, Ligand)
60s ribosomal protein l25-like protein (17 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s14-like protein (16 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s3-like protein (27 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s7 (23 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s12 (15 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l43-like protein (10 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l39 (6 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s27a-like protein (17 kDa, Protein from Thermochaetoides thermophila)
Ribosome-associated molecular chaperone ssb1 (67 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s26 (13 kDa, Protein from Thermochaetoides thermophila)
Ribosomal protein l34-like protein (13 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s0 (31 kDa, Protein from Thermochaetoides thermophila)
Ribosomal protein l37 (10 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l22-like protein (14 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l12-like protein (17 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l6 (22 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l17-like protein (20 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s20-like protein (13 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s9-like protein (22 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s13-like protein (16 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s29 (6 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l3-like protein (44 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l24 (18 kDa, Protein from Thermochaetoides thermophila)
Ribosomal protein l19 (22 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s25 (10 kDa, Protein from Thermochaetoides thermophila)
60s ribosomal protein l7-like protein (28 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s6 (27 kDa, Protein from Thermochaetoides thermophila)
Ribosomal protein l18e/l15p domain-containing protein (16 kDa, Protein from Thermochaetoides thermophila)
40s ribosomal protein s1 (29 kDa, Protein from Thermochaetoides thermophila)

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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 [ Pubmed: 38383789 DOI: doi:10.1038/s41586-024-07093-w ]

Sample:

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

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