Resolution: 2.31 Å
EM Method: Single-particle
Fitted PDBs: 8g6x
Q-score: 0.693
Majumdar C, Walker JA, Francis MB, Schepartz A, Cate JHD
ACS Cent Sci (2023) 9 pp. 1160-1169 [ DOI: doi:10.1021/acscentsci.3c00153 Pubmed: 37396857 ]
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
- Mrna (9 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- A-site trna phe (24 kDa, RNA from Escherichia coli)
- 3-aminobenzamide (136 Da, Ligand)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
- Ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- Spermine (202 Da, Ligand)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
- Potassium ion (39 Da, Ligand)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
- Spermidine (145 Da, Ligand)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- 3'-amino-3'-deoxyadenosine 5'-(dihydrogen phosphate) (346 Da, Ligand)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
- Water (18 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 23s rrna (941 kDa, RNA from Escherichia coli)
- P-site trna fmet (24 kDa, RNA from Escherichia coli)
- 5s rrna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
- 50s subunit of e.coli ribosome (Complex from Escherichia coli)
- N-formylmethionine (177 Da, Ligand)
Human mature large subunit of the ribosome with eIF6 and homoharringtonine bound
Resolution: 1.67 Å
EM Method: Single-particle
Fitted PDBs: 8a3d
Q-score: 0.769
Faille A, Dent KC, Pellegrino S, Jaako P, Warren AJ
bioRxiv (2023) [ DOI: doi:10.1101/2023.02.28.530191 Pubmed: 36909531 ]
- 60s ribosomal protein l26 (17 kDa, Protein from human)
- 60s ribosomal protein l38 (8 kDa, Protein from human)
- 60s ribosomal protein l36 (12 kDa, Protein from human)
- 60s ribosomal protein l15 (24 kDa, Protein from human)
- Human mature large subunit of the ribosome with eif6 bound (Complex from Homo sapiens)
- 60s ribosomal protein l27a (16 kDa, Protein from human)
- 28s ribosomal rna (1 MDa, RNA from human)
- 5s ribosomal rna (38 kDa, RNA from human)
- 60s ribosomal protein l24 (17 kDa, Protein from human)
- 60s ribosomal protein l3 (46 kDa, Protein from human)
- 60s ribosomal protein l18a (20 kDa, Protein from human)
- (3beta)-o~3~-[(2r)-2,6-dihydroxy-2-(2-methoxy-2-oxoethyl)-6-methylheptanoyl]cephalotaxine (545 Da, Ligand)
- Sodium ion (22 Da, Ligand)
- 60s ribosomal protein l8 (28 kDa, Protein from human)
- 60s ribosomal protein l23a (17 kDa, Protein from human)
- Spermine (202 Da, Ligand)
- Ubiquitin-60s ribosomal protein l40 (11 kDa, Protein from human)
- 60s ribosomal protein l35a (12 kDa, Protein from human)
- Ribosomal protein ul29 (21 kDa, Protein from human)
- 5.8s ribosomal rna (50 kDa, RNA from human)
- 60s ribosomal protein l37 (11 kDa, Protein from human)
- 60s ribosomal protein l37a (10 kDa, Protein from human)
- Potassium ion (39 Da, Ligand)
- 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid (238 Da, Ligand)
- 60s ribosomal protein l18 (21 kDa, Protein from human)
- 60s ribosomal protein l13 (24 kDa, Protein from human)
- 60s ribosomal protein l34 (13 kDa, Protein from human)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from human)
- Zinc ion (65 Da, Ligand)
- 60s ribosomal protein l23 (14 kDa, Protein from human)
- 60s ribosomal protein l36a (12 kDa, Protein from human)
- 60s ribosomal protein l7 (29 kDa, Protein from human)
- 60s ribosomal protein l32 (15 kDa, Protein from human)
- 60s ribosomal protein l7a (30 kDa, Protein from human)
- 60s ribosomal protein l11 (20 kDa, Protein from human)
- 60s ribosomal protein l22 (14 kDa, Protein from human)
- Water (18 Da, Ligand)
- 60s ribosomal protein l9 (21 kDa, Protein from human)
- 60s ribosomal protein l4 (47 kDa, Protein from human)
- 60s ribosomal protein l21 (18 kDa, Protein from human)
- 60s ribosomal protein l27 (15 kDa, Protein from human)
- Magnesium ion (24 Da, Ligand)
- 60s ribosomal protein l5 (34 kDa, Protein from human)
- 60s ribosomal protein l6 (32 kDa, Protein from human)
- 60s ribosomal protein l14 (23 kDa, Protein from human)
- 60s ribosomal protein l13a (23 kDa, Protein from human)
- 60s ribosomal protein l31 (14 kDa, Protein from human)
- 60s ribosomal protein l17 (21 kDa, Protein from human)
- 60s ribosomal protein l28 (15 kDa, Protein from human)
- 60s ribosomal protein l29 (17 kDa, Protein from human)
- 60s ribosomal protein l39 (6 kDa, Protein from human)
- 60s ribosomal protein l10 (24 kDa, Protein from human)
- 60s ribosomal protein l19 (23 kDa, Protein from human)
- 60s ribosomal protein l30 (12 kDa, Protein from human)
Resolution: 2.3 Å
EM Method: Single-particle
Fitted PDBs: 8akn
Q-score: 0.647
Koller TO, Morici M, Berger M, Safdari HA, Lele DS, Beckert B, Kaur KJ, Wilson DN
Nat Chem Biol (2023) 19 pp. 1072-1081 [ DOI: doi:10.1038/s41589-023-01293-7 Pubmed: 36997646 ]
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli BW25113)
- Phenylalanine-trna (24 kDa, RNA from Escherichia coli BW25113)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli BW25113)
- Mrna (2 kDa, RNA from Escherichia coli BW25113)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli BW25113)
- Peptide chain release factor rf1 (40 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli BW25113)
- 2-acetamido-2-deoxy-alpha-d-galactopyranose (221 Da, Ligand)
- 30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli BW25113)
- Drosocin1 (2 kDa, Protein from Drosophila melanogaster)
- 30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli BW25113)
- Spermine (202 Da, Ligand)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli BW25113)
- Isoleucine-trna (24 kDa, RNA from Escherichia coli BW25113)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s6, fully modified isoform (15 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli BW25113)
- Zinc ion (65 Da, Ligand)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli BW25113)
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli BW25113)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli BW25113)
- Water (18 Da, Ligand)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli BW25113)
- Magnesium ion (24 Da, Ligand)
- 30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli BW25113)
- Cryo-em structure of the proline-rich antimicrobial peptide drosocin bound to the terminating ribosome (2 MDa, Complex from Escherichia coli BW25113)
- 30s ribosomal protein s3 (26 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli BW25113)
- 16s ribosomal rna (497 kDa, RNA from Escherichia coli BW25113)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli BW25113)
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8am9
Q-score: 0.594
Koller TO, Morici M, Berger M, Safdari HA, Lele DS, Beckert B, Kaur KJ, Wilson DN
Nat Chem Biol (2023) 19 pp. 1072-1081 [ DOI: doi:10.1038/s41589-023-01293-7 Pubmed: 36997646 ]
- Cryo-em structure of the proline-rich antimicrobial peptide drosocin bound to the elongating ribosome (2 MDa, Complex from Escherichia coli K-12)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli BW25113)
- 2-acetamido-2-deoxy-alpha-d-galactopyranose (221 Da, Ligand)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli BW25113)
- Drosocin1 (2 kDa, Protein from Drosophila melanogaster)
- Spermine (202 Da, Ligand)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli BW25113)
- Leucine trna (27 kDa, RNA from Escherichia coli BW25113)
- 30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s6, fully modified isoform (15 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli BW25113)
- Zinc ion (65 Da, Ligand)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli BW25113)
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli BW25113)
- Initiator trna (24 kDa, RNA from Escherichia coli BW25113)
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli BW25113)
- Mrna (3 kDa, RNA from Escherichia coli BW25113)
- 30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli BW25113)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli BW25113)
- Water (18 Da, Ligand)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli BW25113)
- Magnesium ion (24 Da, Ligand)
- 30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s3 (26 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli BW25113)
- 16s ribosomal rna (497 kDa, RNA from Escherichia coli BW25113)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli BW25113)
Resolution: 2.1 Å
EM Method: Single-particle
Fitted PDBs: 8ana
Q-score: 0.695
Koller TO, Morici M, Berger M, Safdari HA, Lele DS, Beckert B, Kaur KJ, Wilson DN
Nat Chem Biol (2023) 19 pp. 1072-1081 [ DOI: doi:10.1038/s41589-023-01293-7 Pubmed: 36997646 ]
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli BW25113)
- 2-acetamido-2-deoxy-alpha-d-galactopyranose (221 Da, Ligand)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli BW25113)
- Drosocin1 (2 kDa, Protein from Drosophila melanogaster)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli BW25113)
- Spermine (202 Da, Ligand)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli BW25113)
- Zinc ion (65 Da, Ligand)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli BW25113)
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli BW25113)
- Water (18 Da, Ligand)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli BW25113)
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli BW25113)
- Cryo-em structure of the proline-rich antimicrobial peptide drosocin bound to the 50s ribosomal subunit (1 MDa, Complex from Escherichia coli K-12)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli BW25113)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli BW25113)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli BW25113)
Cryo EM structure of lysosomal ATPase
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7fjq
Q-score: 0.399
Chen X, Zhou M, Zhang S, Yin J, Zhang P, Xuan X, Wang P, Liu Z, Zhou B, Yang M
Cell Discov (2021) 7 pp. 106-106 [ Pubmed: 34728622 DOI: doi:10.1038/s41421-021-00334-6 ]
- Lysosomal atpase e2pi state (Cellular component from Homo sapiens)
- Polyamine-transporting atpase 13a2 (125 kDa, Protein from Homo sapiens)
- Spermine (202 Da, Ligand)
E. coli 70S ribosome with A-loop mutations U2554C and U2555C (Composite Map)
Resolution: 2.24 Å
EM Method: Single-particle
Fitted PDBs: 8eiu
Q-score: 0.658
Nissley AJ, Penev PI, Watson ZL, Banfield JF, Cate JHD
Nucleic Acids Res (2023) 51 pp. 1880-1894 [ Pubmed: 36660825 DOI: doi:10.1093/nar/gkac1273 ]
- 30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
- Methionine (149 Da, Ligand)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- E. coli 70s ribosome with a-loop mutations u2554c and u2555c (850 kDa, Complex from Escherichia coli)
- 30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
- Ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
- Mrna (8 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- Spermine (202 Da, Ligand)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
- 50s subunit (Complex from Escherichia coli)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- 30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
- 30s subunit (Complex from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- Spermidine (145 Da, Ligand)
- 16s rrna (499 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli)
- 23s rrna (941 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli)
- 3'-amino-3'-deoxyadenosine 5'-(dihydrogen phosphate) (346 Da, Ligand)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
- Water (18 Da, Ligand)
- 30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s3 (26 kDa, Protein from Escherichia coli)
- 5s rrna (38 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
- Trna-fmet (24 kDa, RNA from Escherichia coli)
- Paromomycin (615 Da, Ligand)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
GluK3 D759G mutant receptor complex with UBP310 and spermine
Resolution: 5.9 Å
EM Method: Single-particle
Fitted PDBs: 7vm2
Q-score: 0.198
To Be Published
Specific features and methylation sites of a plant 80S ribosome
Resolution: 2.38 Å
EM Method: Single-particle
Fitted PDBs: 7qiz
Q-score: 0.666
Cottilli P, Itoh Y, Nobe Y, Petrov AS, Lison P, Taoka M, Amunts A
Plant Commun. (2022) 3 pp. 100342-100342 [ Pubmed: 35643637 DOI: doi:10.1016/j.xplc.2022.100342 ]
- 40s ribosomal protein s25 (11 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein l18a (21 kDa, Protein from Solanum lycopersicum)
- Mitogen-activated protein kinase (35 kDa, Protein from Solanum lycopersicum)
- Thaliana 60s ribosomal protein l7 (28 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s3a (29 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein l29 (6 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein l27 (15 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s27 (9 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s7 (22 kDa, Protein from Solanum lycopersicum)
- Beta-d-glucopyranose (180 Da, Ligand)
- S5 drbm domain-containing protein (30 kDa, Protein from Solanum lycopersicum)
- Water (18 Da, Ligand)
- 40s ribosomal protein s8 (24 kDa, Protein from Solanum lycopersicum)
- Kh type-2 domain-containing protein (26 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein ul6 (22 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein us14 (6 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein el31 (13 kDa, Protein from Solanum lycopersicum)
- 30s ribosomal protein s15, chloroplastic (17 kDa, Protein from Solanum lycopersicum)
- Ribosomal protein s14 (16 kDa, Protein from Solanum lycopersicum)
- Pectinesterase (23 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s4 (29 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein l10 (24 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein el34 (13 kDa, Protein from Solanum lycopersicum)
- Potassium ion (39 Da, Ligand)
- Trna_1 (4 kDa, RNA from Solanum lycopersicum)
- 1,4-diaminobutane (88 Da, Ligand)
- 60s ribosomal protein el33 (12 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein us9 (16 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein us19 (17 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein us13 (17 kDa, Protein from Solanum lycopersicum)
- Trna (589 Da, RNA from Solanum lycopersicum)
- Ribosomal_s17_n domain-containing protein (17 kDa, Protein from Solanum lycopersicum)
- Ribos_l4_asso_c domain-containing protein (44 kDa, Protein from Solanum lycopersicum)
- Trash domain-containing protein (18 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein el39 (6 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s15a-1 (14 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein l8 (28 kDa, Protein from Solanum lycopersicum)
- 50s ribosomal protein l22, chloroplastic (19 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein sa (32 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein l13 (23 kDa, Protein from Solanum lycopersicum)
- Mrna (895 Da, RNA from Solanum lycopersicum)
- 60s ribosomal protein l36 (12 kDa, Protein from Solanum lycopersicum)
- Ribosomal_l6e_n domain-containing protein (25 kDa, Protein from Solanum lycopersicum)
- Ubiquitin (14 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein el32 (15 kDa, Protein from Solanum lycopersicum)
- 5s rrna (38 kDa, RNA from Solanum lycopersicum)
- 40s ribosomal protein s21 (9 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s6 (28 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein ul5 (20 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein l38 (8 kDa, Protein from Solanum lycopersicum)
- 18s (583 kDa, RNA from Solanum lycopersicum)
- 40s ribosomal protein es19 (16 kDa, Protein from Solanum lycopersicum)
- Ribosomal_l18_c domain-containing protein (34 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s24 (15 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein el42 (12 kDa, Protein from Solanum lycopersicum)
- Magnesium ion (24 Da, Ligand)
- 40s ribosomal protein s17 (16 kDa, Protein from Solanum lycopersicum)
- 40s body ribosomal protein us12 (15 kDa, Protein from Solanum lycopersicum)
- Ribosomal_l7ae domain-containing protein (29 kDa, Protein from Solanum lycopersicum)
- Ribosomal_s10 domain-containing protein (13 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein el22 (13 kDa, Protein from Solanum lycopersicum)
- Kow domain-containing protein (16 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein l41 (3 kDa, Protein from Solanum lycopersicum)
- Ribosomal protein l37 (10 kDa, Protein from Solanum lycopersicum)
- 5.8s rrna (53 kDa, RNA from Solanum lycopersicum)
- 40s ribosomal protein es28 (7 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s26 (14 kDa, Protein from Solanum lycopersicum)
- Similar to 60s ribosomal protein l35 (14 kDa, Protein from Solanum lycopersicum)
- 40s ribosomal protein s30 (6 kDa, Protein from Solanum lycopersicum)
- Spermine (202 Da, Ligand)
- 60s ribosomal protein el30 (12 kDa, Protein from Solanum lycopersicum)
- Ribosomal_s7 domain-containing protein (23 kDa, Protein from Solanum lycopersicum)
- Zinc ion (65 Da, Ligand)
- Spermidine (145 Da, Ligand)
- 60s ribosomal protein el43 (10 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein el21 (18 kDa, Protein from Solanum lycopersicum)
- 80s ribosome (Complex from Solanum lycopersicum)
- Ribosomal_l23en domain-containing protein (17 kDa, Protein from Solanum lycopersicum)
- Ribosomal_l18e/l15p domain-containing protein (16 kDa, Protein from Solanum lycopersicum)
- Ribosomal_l28e domain-containing protein (16 kDa, Protein from Solanum lycopersicum)
- 25s rrna (1 MDa, RNA from Solanum lycopersicum)
- Ribosomal protein l3 (44 kDa, Protein from Solanum lycopersicum)
- Ribosomal_l18e/l15p domain-containing protein (20 kDa, Protein from Solanum lycopersicum)
- 40s body ribosomal protein us4 (23 kDa, Protein from Solanum lycopersicum)
- 60s ribosomal protein ul14 (15 kDa, Protein from Solanum lycopersicum)
- Ribosomal protein l15 (24 kDa, Protein from Solanum lycopersicum)
- S10_plectin domain-containing protein (19 kDa, Protein from Solanum lycopersicum)
- Ribosomal protein l19 (24 kDa, Protein from Solanum lycopersicum)
- Ribosomal_l14e domain-containing protein (15 kDa, Protein from Solanum lycopersicum)
Human mitochondrial ribosome small subunit in complex with IF3, GMPPMP and streptomycin
Resolution: 2.4 Å
EM Method: Single-particle
Fitted PDBs: 7p2e
Q-score: 0.667
Itoh Y, Singh V, Khawaja A, Naschberger A, Nguyen MD, Rorbach J, Amunts A
eLife (2022) 11 [ Pubmed: 36480258 DOI: doi:10.7554/eLife.77460 ]
- 28s ribosomal protein s34, mitochondrial (25 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s27, mitochondrial (47 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s9, mitochondrial (45 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s31, mitochondrial (45 kDa, Protein from Homo sapiens)
- Translation initiation factor if-3, mitochondrial (Complex from Homo sapiens)
- Small subunit of human mitochondrial ribosome in complex with initiation factor 3 (Complex)
- 28s ribosomal protein s12, mitochondrial (15 kDa, Protein from Homo sapiens)
- Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
- 28s ribosomal protein s6, mitochondrial (14 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s11, mitochondrial (20 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s26, mitochondrial (24 kDa, Protein from Homo sapiens)
- Pentatricopeptide repeat domain-containing protein 3, mitochondrial (78 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s29, mitochondrial (45 kDa, Protein from Homo sapiens)
- Spermine (202 Da, Ligand)
- 28s ribosomal protein s23, mitochondrial (21 kDa, Protein from Homo sapiens)
- [(2~{s},3~{s},4~{s},5~{r},6~{s})-2-[(2~{r},3~{r},4~{r},5~{s})-2-[(1~{r},2~{s},3~{r},4~{r},5~{s},6~{r})-2,4-bis[[azaniumylidene(azanyl)methyl]amino]-3,5,6-tris(oxidanyl)cyclohexyl]oxy-4-[bis(oxidanyl)methyl]-5-methyl-4-oxidanyl-oxolan-3-yl]oxy-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-3-yl]-methyl-azanium (602 Da, Ligand)
- Potassium ion (39 Da, Ligand)
- 28s ribosomal protein s17, mitochondrial (14 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s10, mitochondrial (23 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Aurora kinase a-interacting protein (22 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s33, mitochondrial (12 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s25, mitochondrial (20 kDa, Protein from Homo sapiens)
- Coiled-coil-helix-coiled-coil-helix domain-containing protein 1 (13 kDa, Protein from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- 12s mitochondrial rrna (306 kDa, RNA from Homo sapiens)
- 28s ribosomal protein s5, mitochondrial (48 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s2, mitochondrial (33 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Translation initiation factor if-3, mitochondrial (32 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s24, mitochondrial (19 kDa, Protein from Homo sapiens)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- 28s ribosomal protein s35, mitochondrial (36 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 28s ribosomal protein s28, mitochondrial (20 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s7, mitochondrial (28 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s16, mitochondrial (15 kDa, Protein from Homo sapiens)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Small subunit of human mitochondrial ribosome in complex (Complex from Homo sapiens)
- 28s ribosomal protein s15, mitochondrial (29 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s22, mitochondrial (41 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s14, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s18b, mitochondrial (29 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s18c, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s21, mitochondrial (10 kDa, Protein from Homo sapiens)