Human mitochondrial small subunit assembly intermediate (State A)
Resolution: 2.66 Å
EM Method: Single-particle
Fitted PDBs: 8csp
Q-score: 0.548
Harper NJ, Burnside C, Klinge S
Nature (2023) 614 pp. 175-181 [ Pubmed: 36482135 DOI: doi:10.1038/s41586-022-05621-0 ]
- 28s ribosomal protein s21, mitochondrial (10 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 s29, mitochondrial (45 kDa, Protein from Homo sapiens)
- 12s mitochondrial rrna (306 kDa, RNA from Homo sapiens)
- Gtpase era, mitochondrial (48 kDa, Protein from Homo sapiens)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- 28s ribosomal protein s33, mitochondrial (12 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 28s ribosomal protein s7, mitochondrial (28 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s5, mitochondrial (48 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s12, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s28, mitochondrial (20 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s6, mitochondrial (14 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s23, mitochondrial (21 kDa, Protein from Homo sapiens)
- Potassium ion (39 Da, Ligand)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 28s ribosomal protein s16, mitochondrial (15 kDa, Protein from Homo sapiens)
- Dimethyladenosine transferase 1, mitochondrial (39 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s25, mitochondrial (20 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s22, mitochondrial (41 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s27, mitochondrial (47 kDa, Protein from Homo sapiens)
- Pentatricopeptide repeat domain-containing protein 3, mitochondrial (78 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s24, mitochondrial (19 kDa, Protein from Homo sapiens)
- Nitric oxide-associated protein 1 (78 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s18c, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s17, mitochondrial (14 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s2, mitochondrial (33 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s31, mitochondrial (45 kDa, Protein from Homo sapiens)
- Methyltransferase-like protein 17, mitochondrial (50 kDa, Protein from Homo sapiens)
- S-adenosylmethionine (398 Da, Ligand)
- Human mitochondrial small subunit assembly intermediate, state a (1 MDa, Complex from Homo sapiens)
- 28s ribosomal protein s35, mitochondrial (36 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s15, mitochondrial (29 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s9, mitochondrial (45 kDa, Protein from Homo sapiens)
- Iron/sulfur cluster (351 Da, Ligand)
- 28s ribosomal protein s26, mitochondrial (24 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s10, mitochondrial (23 kDa, Protein from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- 28s ribosomal protein s34, mitochondrial (25 kDa, Protein from Homo sapiens)
- Malonyl-coa-acyl carrier protein transacylase, mitochondrial (43 kDa, Protein from Homo sapiens)
Human mitochondrial small subunit assembly intermediate (State B)
Resolution: 2.54 Å
EM Method: Single-particle
Fitted PDBs: 8csq
Q-score: 0.566
Harper NJ, Burnside C, Klinge S
Nature (2023) 614 pp. 175-181 [ Pubmed: 36482135 DOI: doi:10.1038/s41586-022-05621-0 ]
- 28s ribosomal protein s21, mitochondrial (10 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)
- Aurora kinase a-interacting protein (22 kDa, Protein from Homo sapiens)
- 12s mitochondrial rrna (306 kDa, RNA from Homo sapiens)
- 28s ribosomal protein s29, mitochondrial (45 kDa, Protein from Homo sapiens)
- Gtpase era, mitochondrial (48 kDa, Protein from Homo sapiens)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- 28s ribosomal protein s33, mitochondrial (12 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 28s ribosomal protein s7, mitochondrial (28 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s5, mitochondrial (48 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s12, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s28, mitochondrial (20 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s6, mitochondrial (14 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s23, mitochondrial (21 kDa, Protein from Homo sapiens)
- Human mitochondrial small subunit assembly intermediate, state b (1 MDa, Complex from Homo sapiens)
- Potassium ion (39 Da, Ligand)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 28s ribosomal protein s16, mitochondrial (15 kDa, Protein from Homo sapiens)
- Dimethyladenosine transferase 1, mitochondrial (39 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s25, mitochondrial (20 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s22, mitochondrial (41 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s27, mitochondrial (47 kDa, Protein from Homo sapiens)
- Pentatricopeptide repeat domain-containing protein 3, mitochondrial (78 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s24, mitochondrial (19 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s18c, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s17, mitochondrial (14 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s2, mitochondrial (33 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s31, mitochondrial (45 kDa, Protein from Homo sapiens)
- Methyltransferase-like protein 17, mitochondrial (50 kDa, Protein from Homo sapiens)
- S-adenosylmethionine (398 Da, Ligand)
- 28s ribosomal protein s35, mitochondrial (36 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s15, mitochondrial (29 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s9, mitochondrial (45 kDa, Protein from Homo sapiens)
- Iron/sulfur cluster (351 Da, Ligand)
- 28s ribosomal protein s26, mitochondrial (24 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s10, mitochondrial (23 kDa, Protein from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- 28s ribosomal protein s34, mitochondrial (25 kDa, Protein from Homo sapiens)
- Malonyl-coa-acyl carrier protein transacylase, mitochondrial (43 kDa, Protein from Homo sapiens)
Human mitochondrial small subunit assembly intermediate (State C)
Resolution: 2.54 Å
EM Method: Single-particle
Fitted PDBs: 8csr
Q-score: 0.563
Harper NJ, Burnside C, Klinge S
Nature (2023) 614 pp. 175-181 [ Pubmed: 36482135 DOI: doi:10.1038/s41586-022-05621-0 ]
- 28s ribosomal protein s14, mitochondrial (15 kDa, Protein from human)
- Pentatricopeptide repeat domain-containing protein 3, mitochondrial (78 kDa, Protein from human)
- 28s ribosomal protein s6, mitochondrial (14 kDa, Protein from human)
- 28s ribosomal protein s26, mitochondrial (24 kDa, Protein from human)
- 28s ribosomal protein s2, mitochondrial (33 kDa, Protein from human)
- 28s ribosomal protein s23, mitochondrial (21 kDa, Protein from human)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- 28s ribosomal protein s34, mitochondrial (25 kDa, Protein from human)
- Malonyl-coa-acyl carrier protein transacylase, mitochondrial (43 kDa, Protein from human)
- 28s ribosomal protein s11, mitochondrial (20 kDa, Protein from human)
- Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- 28s ribosomal protein s7, mitochondrial (28 kDa, Protein from human)
- 28s ribosomal protein s25, mitochondrial (20 kDa, Protein from human)
- 28s ribosomal protein s31, mitochondrial (45 kDa, Protein from human)
- 28s ribosomal protein s5, mitochondrial (48 kDa, Protein from human)
- Potassium ion (39 Da, Ligand)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 12s mitochondrial rrna (306 kDa, RNA from human)
- 28s ribosomal protein s27, mitochondrial (47 kDa, Protein from human)
- 28s ribosomal protein s22, mitochondrial (41 kDa, Protein from human)
- 28s ribosomal protein s12, mitochondrial (15 kDa, Protein from human)
- 28s ribosomal protein s18c, mitochondrial (15 kDa, Protein from human)
- 28s ribosomal protein s10, mitochondrial (23 kDa, Protein from human)
- Water (18 Da, Ligand)
- 28s ribosomal protein s9, mitochondrial (45 kDa, Protein from human)
- Human mitochondrial small subunit assembly intermediate, state c (1 MDa, Complex from Homo sapiens)
- 28s ribosomal protein s33, mitochondrial (12 kDa, Protein from human)
- 28s ribosomal protein s18b, mitochondrial (29 kDa, Protein from human)
- Methyltransferase-like protein 17, mitochondrial (50 kDa, Protein from human)
- Putative ribosome-binding factor a, mitochondrial (38 kDa, Protein from human)
- 28s ribosomal protein s28, mitochondrial (20 kDa, Protein from human)
- S-adenosylmethionine (398 Da, Ligand)
- 28s ribosomal protein s24, mitochondrial (19 kDa, Protein from human)
- 28s ribosomal protein s29, mitochondrial (45 kDa, Protein from human)
- Iron/sulfur cluster (351 Da, Ligand)
- 28s ribosomal protein s17, mitochondrial (14 kDa, Protein from human)
- Dimethyladenosine transferase 1, mitochondrial (39 kDa, Protein from human)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Aurora kinase a-interacting protein (22 kDa, Protein from human)
- 28s ribosomal protein s35, mitochondrial (36 kDa, Protein from human)
- 28s ribosomal protein s21, mitochondrial (10 kDa, Protein from human)
- 28s ribosomal protein s16, mitochondrial (15 kDa, Protein from human)
- 28s ribosomal protein s15, mitochondrial (29 kDa, Protein from human)
Human mitochondrial small subunit assembly intermediate (State D)
Resolution: 2.36 Å
EM Method: Single-particle
Fitted PDBs: 8css
Q-score: 0.576
Harper NJ, Burnside C, Klinge S
Nature (2023) 614 pp. 175-181 [ DOI: doi:10.1038/s41586-022-05621-0 Pubmed: 36482135 ]
- 28s ribosomal protein s26, mitochondrial (24 kDa, Protein from human)
- Putative ribosome-binding factor a, mitochondrial (38 kDa, Protein from human)
- 28s ribosomal protein s7, mitochondrial (28 kDa, Protein from human)
- 28s ribosomal protein s17, mitochondrial (14 kDa, Protein from human)
- Aurora kinase a-interacting protein (22 kDa, Protein from human)
- 28s ribosomal protein s6, mitochondrial (14 kDa, Protein from human)
- 28s ribosomal protein s12, mitochondrial (15 kDa, Protein from human)
- 28s ribosomal protein s22, mitochondrial (41 kDa, Protein from human)
- 28s ribosomal protein s25, mitochondrial (20 kDa, Protein from human)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
- 28s ribosomal protein s28, mitochondrial (20 kDa, Protein from human)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- 28s ribosomal protein s11, mitochondrial (20 kDa, Protein from human)
- Pentatricopeptide repeat domain-containing protein 3, mitochondrial (78 kDa, Protein from human)
- 28s ribosomal protein s10, mitochondrial (23 kDa, Protein from human)
- Iron/sulfur cluster (351 Da, Ligand)
- 28s ribosomal protein s29, mitochondrial (45 kDa, Protein from human)
- 28s ribosomal protein s34, mitochondrial (25 kDa, Protein from human)
- 28s ribosomal protein s21, mitochondrial (10 kDa, Protein from human)
- 12s mitochondrial rrna (306 kDa, RNA from human)
- Potassium ion (39 Da, Ligand)
- 28s ribosomal protein s14, mitochondrial (15 kDa, Protein from human)
- 28s ribosomal protein s31, mitochondrial (45 kDa, Protein from human)
- 28s ribosomal protein s18b, mitochondrial (29 kDa, Protein from human)
- Methyltransferase-like protein 17, mitochondrial (50 kDa, Protein from human)
- 28s ribosomal protein s33, mitochondrial (12 kDa, Protein from human)
- Water (18 Da, Ligand)
- 28s ribosomal protein s35, mitochondrial (36 kDa, Protein from human)
- 28s ribosomal protein s18c, mitochondrial (15 kDa, Protein from human)
- 28s ribosomal protein s27, mitochondrial (47 kDa, Protein from human)
- 28s ribosomal protein s24, mitochondrial (19 kDa, Protein from human)
- S-adenosylmethionine (398 Da, Ligand)
- 28s ribosomal protein s9, mitochondrial (45 kDa, Protein from human)
- 28s ribosomal protein s16, mitochondrial (15 kDa, Protein from human)
- 28s ribosomal protein s2, mitochondrial (33 kDa, Protein from human)
- 28s ribosomal protein s23, mitochondrial (21 kDa, Protein from human)
- 28s ribosomal protein s15, mitochondrial (29 kDa, Protein from human)
- Human mitochondrial small subunit assembly intermediate, state d (1 MDa, Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- 28s ribosomal protein s5, mitochondrial (48 kDa, Protein from human)
- Malonyl-coa-acyl carrier protein transacylase, mitochondrial (43 kDa, Protein from human)
Human mitochondrial small subunit assembly intermediate (State E)
Resolution: 2.85 Å
EM Method: Single-particle
Fitted PDBs: 8cst
Q-score: 0.555
Harper NJ, Burnside C, Klinge S
Nature (2023) 614 pp. 175-181 [ Pubmed: 36482135 DOI: doi:10.1038/s41586-022-05621-0 ]
- 28s ribosomal protein s14, mitochondrial (15 kDa, Protein from human)
- Pentatricopeptide repeat domain-containing protein 3, mitochondrial (78 kDa, Protein from human)
- 28s ribosomal protein s6, mitochondrial (14 kDa, Protein from human)
- 28s ribosomal protein s26, mitochondrial (24 kDa, Protein from human)
- 28s ribosomal protein s2, mitochondrial (33 kDa, Protein from human)
- 28s ribosomal protein s23, mitochondrial (21 kDa, Protein from human)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- 28s ribosomal protein s34, mitochondrial (25 kDa, Protein from human)
- 28s ribosomal protein s11, mitochondrial (20 kDa, Protein from human)
- Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- 28s ribosomal protein s7, mitochondrial (28 kDa, Protein from human)
- 28s ribosomal protein s25, mitochondrial (20 kDa, Protein from human)
- 28s ribosomal protein s31, mitochondrial (45 kDa, Protein from human)
- 28s ribosomal protein s5, mitochondrial (48 kDa, Protein from human)
- Potassium ion (39 Da, Ligand)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 28s ribosomal protein s27, mitochondrial (47 kDa, Protein from human)
- 28s ribosomal protein s22, mitochondrial (41 kDa, Protein from human)
- 28s ribosomal protein s12, mitochondrial (15 kDa, Protein from human)
- 28s ribosomal protein s18c, mitochondrial (15 kDa, Protein from human)
- 28s ribosomal protein s10, mitochondrial (23 kDa, Protein from human)
- Human mitochondrial small subunit assembly intermediate, state e (1 MDa, Complex from Homo sapiens)
- 28s ribosomal protein s9, mitochondrial (45 kDa, Protein from human)
- 28s ribosomal protein s33, mitochondrial (12 kDa, Protein from human)
- 28s ribosomal protein s18b, mitochondrial (29 kDa, Protein from human)
- Methyltransferase-like protein 17, mitochondrial (50 kDa, Protein from human)
- Putative ribosome-binding factor a, mitochondrial (38 kDa, Protein from human)
- 12s mitochondrial rrna (306 kDa, RNA from human)
- 28s ribosomal protein s28, mitochondrial (20 kDa, Protein from human)
- S-adenosylmethionine (398 Da, Ligand)
- 28s ribosomal protein s24, mitochondrial (19 kDa, Protein from human)
- 28s ribosomal protein s29, mitochondrial (45 kDa, Protein from human)
- Iron/sulfur cluster (351 Da, Ligand)
- 28s ribosomal protein s17, mitochondrial (14 kDa, Protein from human)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Aurora kinase a-interacting protein (22 kDa, Protein from human)
- 28s ribosomal protein s35, mitochondrial (36 kDa, Protein from human)
- 28s ribosomal protein s21, mitochondrial (10 kDa, Protein from human)
- 28s ribosomal protein s16, mitochondrial (15 kDa, Protein from human)
- 28s ribosomal protein s15, mitochondrial (29 kDa, Protein from human)
Human mitochondrial small subunit assembly intermediate (State C*)
Resolution: 3.03 Å
EM Method: Single-particle
Fitted PDBs: 8csu
Q-score: 0.519
Harper NJ, Burnside C, Klinge S
Nature (2023) 614 pp. 175-181 [ Pubmed: 36482135 DOI: doi:10.1038/s41586-022-05621-0 ]
- 28s ribosomal protein s14, mitochondrial (15 kDa, Protein from human)
- Pentatricopeptide repeat domain-containing protein 3, mitochondrial (78 kDa, Protein from human)
- 28s ribosomal protein s6, mitochondrial (14 kDa, Protein from human)
- 28s ribosomal protein s26, mitochondrial (24 kDa, Protein from human)
- 28s ribosomal protein s2, mitochondrial (33 kDa, Protein from human)
- 28s ribosomal protein s23, mitochondrial (21 kDa, Protein from human)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- 28s ribosomal protein s34, mitochondrial (25 kDa, Protein from human)
- 28s ribosomal protein s11, mitochondrial (20 kDa, Protein from human)
- Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- 28s ribosomal protein s7, mitochondrial (28 kDa, Protein from human)
- 28s ribosomal protein s25, mitochondrial (20 kDa, Protein from human)
- 28s ribosomal protein s31, mitochondrial (45 kDa, Protein from human)
- 28s ribosomal protein s5, mitochondrial (48 kDa, Protein from human)
- Potassium ion (39 Da, Ligand)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 12s mitochondrial rrna (306 kDa, RNA from human)
- 28s ribosomal protein s27, mitochondrial (47 kDa, Protein from human)
- 28s ribosomal protein s22, mitochondrial (41 kDa, Protein from human)
- 28s ribosomal protein s12, mitochondrial (15 kDa, Protein from human)
- 28s ribosomal protein s18c, mitochondrial (15 kDa, Protein from human)
- 28s ribosomal protein s10, mitochondrial (23 kDa, Protein from human)
- 28s ribosomal protein s9, mitochondrial (45 kDa, Protein from human)
- 28s ribosomal protein s33, mitochondrial (12 kDa, Protein from human)
- 28s ribosomal protein s18b, mitochondrial (29 kDa, Protein from human)
- Methyltransferase-like protein 17, mitochondrial (50 kDa, Protein from human)
- Putative ribosome-binding factor a, mitochondrial (38 kDa, Protein from human)
- 28s ribosomal protein s28, mitochondrial (20 kDa, Protein from human)
- S-adenosylmethionine (398 Da, Ligand)
- 28s ribosomal protein s24, mitochondrial (19 kDa, Protein from human)
- 28s ribosomal protein s29, mitochondrial (45 kDa, Protein from human)
- Iron/sulfur cluster (351 Da, Ligand)
- 28s ribosomal protein s17, mitochondrial (14 kDa, Protein from human)
- Dimethyladenosine transferase 1, mitochondrial (39 kDa, Protein from human)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Aurora kinase a-interacting protein (22 kDa, Protein from human)
- Human mitochondrial small subunit assembly intermediate, state c* (1 MDa, Complex from Homo sapiens)
- 28s ribosomal protein s35, mitochondrial (36 kDa, Protein from human)
- 28s ribosomal protein s21, mitochondrial (10 kDa, Protein from human)
- 28s ribosomal protein s16, mitochondrial (15 kDa, Protein from human)
- 28s ribosomal protein s15, mitochondrial (29 kDa, Protein from human)
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 [ DOI: doi:10.7554/eLife.77460 Pubmed: 36480258 ]
- 28s ribosomal protein s14, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s18b, mitochondrial (29 kDa, Protein from Homo sapiens)
- 12s mitochondrial rrna (306 kDa, RNA from Homo sapiens)
- Translation initiation factor if-3, mitochondrial (Complex from Homo sapiens)
- 28s ribosomal protein s29, mitochondrial (45 kDa, Protein from Homo sapiens)
- Aurora kinase a-interacting protein (22 kDa, Protein from Homo sapiens)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- 28s ribosomal protein s33, mitochondrial (12 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 28s ribosomal protein s7, mitochondrial (28 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s5, mitochondrial (48 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s12, mitochondrial (15 kDa, Protein from Homo sapiens)
- Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
- 28s ribosomal protein s28, mitochondrial (20 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s6, mitochondrial (14 kDa, Protein from Homo sapiens)
- Small subunit of human mitochondrial ribosome in complex (Complex from Homo sapiens)
- 28s ribosomal protein s23, mitochondrial (21 kDa, Protein from Homo sapiens)
- Spermine (202 Da, Ligand)
- Translation initiation factor if-3, mitochondrial (32 kDa, Protein from Homo sapiens)
- Potassium ion (39 Da, Ligand)
- 28s ribosomal protein s16, mitochondrial (15 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)
- 28s ribosomal protein s22, mitochondrial (41 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s27, mitochondrial (47 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)
- Pentatricopeptide repeat domain-containing protein 3, mitochondrial (78 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- 28s ribosomal protein s11, mitochondrial (20 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s24, mitochondrial (19 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s21, mitochondrial (10 kDa, Protein from Homo sapiens)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- 28s ribosomal protein s18c, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s17, mitochondrial (14 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s2, mitochondrial (33 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s31, mitochondrial (45 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s15, mitochondrial (29 kDa, Protein from Homo sapiens)
- Small subunit of human mitochondrial ribosome in complex with initiation factor 3 (Complex)
- 28s ribosomal protein s35, mitochondrial (36 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s9, mitochondrial (45 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s26, mitochondrial (24 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s10, mitochondrial (23 kDa, Protein from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- 28s ribosomal protein s34, mitochondrial (25 kDa, Protein from Homo sapiens)
Human mitochondrial ribosome at 2.2 A resolution
Resolution: 2.21 Å
EM Method: Single-particle
Fitted PDBs: 7qi4
Q-score: 0.658
Singh V, Itoh Y, Del'Olio S, Hassan A, Naschberger A, Flygaard RK, Nobe Y, Izumikawa K, Aibara S, Andrell J, Whitford PC, Barrientos A, Taoka M, Amunts A
Nat Commun (2024) 15 pp. 4272-4272 [ Pubmed: 38769321 DOI: doi:10.1038/s41467-024-48163-x ]
- 39s ribosomal protein l45, mitochondrial (35 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l12, mitochondrial (21 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s18b, mitochondrial (29 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l34, mitochondrial (10 kDa, Protein from Homo sapiens)
- Aurora kinase a-interacting protein (22 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l28, mitochondrial (30 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s7, mitochondrial (28 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s5, mitochondrial (48 kDa, Protein from Homo sapiens)
- Nicotinamide-adenine-dinucleotide (663 Da, Ligand)
- 28s ribosomal protein s23, mitochondrial (21 kDa, Protein from Homo sapiens)
- Potassium ion (39 Da, Ligand)
- 39s ribosomal protein l9, mitochondrial (30 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l15, mitochondrial (33 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l37, mitochondrial (48 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s11, mitochondrial (20 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s18c, mitochondrial (15 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l51, mitochondrial (15 kDa, Protein from Homo sapiens)
- Mrna (10 kDa, RNA from Homo sapiens)
- 28s ribosomal protein s17, mitochondrial (14 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l49, mitochondrial (19 kDa, Protein from Homo sapiens)
- Ribosomal protein 63, mitochondrial (12 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s2, mitochondrial (33 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l46, mitochondrial (31 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l3, mitochondrial (38 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l41, mitochondrial (15 kDa, Protein from Homo sapiens)
- Coiled-coil-helix-coiled-coil-helix domain-containing protein 1 (13 kDa, Protein from Homo sapiens)
- Mrps21 isoform 1 (10 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l30, mitochondrial (18 kDa, Protein from Homo sapiens)
- Spermidine (145 Da, Ligand)
- 39s ribosomal protein l43, mitochondrial (23 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l47, mitochondrial (29 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s34, mitochondrial (25 kDa, Protein from Homo sapiens)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- 28s ribosomal protein s6, mitochondrial (14 kDa, Protein from Homo sapiens)
- Spermine (202 Da, Ligand)
- 39s ribosomal protein l53, mitochondrial (12 kDa, Protein from Homo sapiens)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 39s ribosomal protein l24, mitochondrial (24 kDa, Protein from Homo sapiens)
- 39s ribosomal protein s30, mitochondrial (50 kDa, Protein from Homo sapiens)
- P/p-trna (22 kDa, RNA from Homo sapiens)
- 39s ribosomal protein l11, mitochondrial (20 kDa, Protein from Homo sapiens)
- 1,4-diaminobutane (88 Da, Ligand)
- 39s ribosomal protein l16, mitochondrial (28 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l48, mitochondrial (23 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l32, mitochondrial (21 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l40, mitochondrial (24 kDa, Protein from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- 39s ribosomal protein l19, mitochondrial (33 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l38, mitochondrial (44 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l10, mitochondrial (29 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l21, mitochondrial (22 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l35, mitochondrial (21 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l2, mitochondrial (33 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s33, mitochondrial (12 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s12, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s28, mitochondrial (20 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l23, mitochondrial (17 kDa, Protein from Homo sapiens)
- A/a-trna (6 kDa, RNA from Homo sapiens)
- Human mitochondrial ribosome (Complex from Homo sapiens)
- Mitochondrial trnaval (22 kDa, RNA from Homo sapiens)
- 28s ribosomal protein s27, mitochondrial (47 kDa, Protein from Homo sapiens)
- Pentatricopeptide repeat domain-containing protein 3, mitochondrial (78 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s24, mitochondrial (19 kDa, Protein from Homo sapiens)
- 12s mitochondrial rrna (306 kDa, RNA from Homo sapiens)
- 39s ribosomal protein l52, mitochondrial (13 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l20, mitochondrial (17 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l44, mitochondrial (37 kDa, Protein from Homo sapiens)
- 16s mitochondrial rrna (499 kDa, RNA from Homo sapiens)
- 28s ribosomal protein s31, mitochondrial (45 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l17, mitochondrial (20 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l1, mitochondrial (36 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s26, mitochondrial (24 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l22, mitochondrial (23 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l13, mitochondrial (20 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s14, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s29, mitochondrial (45 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l54, mitochondrial (15 kDa, Protein from Homo sapiens)
- Peptidyl-trna hydrolase ict1, mitochondrial (23 kDa, Protein from Homo sapiens)
- Growth arrest and dna damage-inducible proteins-interacting protein 1 (25 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s16, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s25, mitochondrial (20 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s22, mitochondrial (41 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l18, mitochondrial (20 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Valine (117 Da, Ligand)
- 39s ribosomal protein l36, mitochondrial (11 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l27, mitochondrial (16 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l39, mitochondrial (38 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l33, mitochondrial (7 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l4, mitochondrial (34 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l50, mitochondrial (18 kDa, Protein from Homo sapiens)
- E/e-trna (16 kDa, RNA from Homo sapiens)
- 28s ribosomal protein s15, mitochondrial (29 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s35, mitochondrial (36 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l14, mitochondrial (15 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l55, mitochondrial (15 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s9, mitochondrial (45 kDa, Protein from Homo sapiens)
- 28s ribosomal protein s10, mitochondrial (23 kDa, Protein from Homo sapiens)
- 39s ribosomal protein s18a, mitochondrial (22 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 39s ribosomal protein l42, mitochondrial (16 kDa, Protein from Homo sapiens)
Resolution: 3.19 Å
EM Method: Single-particle
Fitted PDBs: 7pnt
Q-score: 0.516
Itoh Y, Khawaja A, Laptev I, Cipullo M, Atanassov I, Sergiev P, Rorbach J, Amunts A
Nature (2022) 606 pp. 603-608 [ Pubmed: 35676484 DOI: doi:10.1038/s41586-022-04795-x ]
- 28s ribosomal protein s9, mitochondrial (44 kDa, Protein from Mus musculus)
- 28s ribosomal protein s24, mitochondrial (18 kDa, Protein from Mus musculus)
- 28s ribosomal protein s25, mitochondrial (19 kDa, Protein from Mus musculus)
- 28s ribosomal protein s12, mitochondrial (15 kDa, Protein from Mus musculus)
- 28s ribosomal protein s11, mitochondrial (20 kDa, Protein from Mus musculus)
- 28s ribosomal protein s21, mitochondrial (10 kDa, Protein from Mus musculus)
- Aurora kinase a-interacting protein (23 kDa, Protein from Mus musculus)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Putative ribosome-binding factor a, mitochondrial (39 kDa, Protein from Mus musculus)
- Zinc ion (65 Da, Ligand)
- 28s ribosomal protein s23, mitochondrial (20 kDa, Protein from Mus musculus)
- 28s ribosomal protein s18c, mitochondrial (16 kDa, Protein from Mus musculus)
- Assembly intermediate of small subunit of human mitochondrial ribosome (Complex from Mus musculus)
- 28s ribosomal protein s7, mitochondrial (28 kDa, Protein from Mus musculus)
- Pentatricopeptide repeat domain-containing protein 3, mitochondrial (77 kDa, Protein from Mus musculus)
- Potassium ion (39 Da, Ligand)
- 28s ribosomal protein s26, mitochondrial (23 kDa, Protein from Mus musculus)
- 28s ribosomal protein s29, mitochondrial (44 kDa, Protein from Mus musculus)
- 28s ribosomal protein s35, mitochondrial (36 kDa, Protein from Mus musculus)
- 28s ribosomal protein s14, mitochondrial (14 kDa, Protein from Mus musculus)
- 12s mitochondrial rrna (306 kDa, RNA from Mus musculus)
- Water (18 Da, Ligand)
- 28s ribosomal protein s22, mitochondrial (41 kDa, Protein from Mus musculus)
- 28s ribosomal protein s15, mitochondrial (29 kDa, Protein from Mus musculus)
- 28s ribosomal protein s18b, mitochondrial (28 kDa, Protein from Mus musculus)
- 28s ribosomal protein s27, mitochondrial (47 kDa, Protein from Mus musculus)
- 28s ribosomal protein s16, mitochondrial (15 kDa, Protein from Mus musculus)
- 28s ribosomal protein s33, mitochondrial (12 kDa, Protein from Mus musculus)
- 28s ribosomal protein s6, mitochondrial (14 kDa, Protein from Mus musculus)
- 28s ribosomal protein s17, mitochondrial (13 kDa, Protein from Mus musculus)
- 28s ribosomal protein s31, mitochondrial (43 kDa, Protein from Mus musculus)
- Dimethyladenosine transferase 1, mitochondrial (39 kDa, Protein from Mus musculus)
- 28s ribosomal protein s10, mitochondrial (18 kDa, Protein from Mus musculus)
- 28s ribosomal protein s2, mitochondrial (32 kDa, Protein from Mus musculus)
- Magnesium ion (24 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- 28s ribosomal protein s28, mitochondrial (20 kDa, Protein from Mus musculus)
- 28s ribosomal protein s34, mitochondrial (25 kDa, Protein from Mus musculus)
- 28s ribosomal protein s5, mitochondrial (48 kDa, Protein from Mus musculus)
Resolution: 3.06 Å
EM Method: Single-particle
Fitted PDBs: 7pnu
Q-score: 0.552
Itoh Y, Khawaja A, Laptev I, Cipullo M, Atanassov I, Sergiev P, Rorbach J, Amunts A
Nature (2022) 606 pp. 603-608 [ DOI: doi:10.1038/s41586-022-04795-x Pubmed: 35676484 ]
- 28s ribosomal protein s11, mitochondrial (20 kDa, Protein from Mus musculus)
- 28s ribosomal protein s22, mitochondrial (41 kDa, Protein from Mus musculus)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- 28s ribosomal protein s7, mitochondrial (28 kDa, Protein from Mus musculus)
- 28s ribosomal protein s29, mitochondrial (44 kDa, Protein from Mus musculus)
- 12s mitochondrial rrna (306 kDa, RNA from Mus musculus)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- 28s ribosomal protein s9, mitochondrial (44 kDa, Protein from Mus musculus)
- 28s ribosomal protein s28, mitochondrial (20 kDa, Protein from Mus musculus)
- Assembly intermediate of small subunit of human mitochondrial ribosome (Complex from Mus musculus)
- 28s ribosomal protein s10, mitochondrial (18 kDa, Protein from Mus musculus)
- Potassium ion (39 Da, Ligand)
- 28s ribosomal protein s18c, mitochondrial (16 kDa, Protein from Mus musculus)
- 28s ribosomal protein s33, mitochondrial (12 kDa, Protein from Mus musculus)
- 28s ribosomal protein s17, mitochondrial (13 kDa, Protein from Mus musculus)
- 28s ribosomal protein s24, mitochondrial (18 kDa, Protein from Mus musculus)
- Water (18 Da, Ligand)
- 28s ribosomal protein s25, mitochondrial (19 kDa, Protein from Mus musculus)
- 28s ribosomal protein s31, mitochondrial (43 kDa, Protein from Mus musculus)
- 28s ribosomal protein s35, mitochondrial (36 kDa, Protein from Mus musculus)
- 28s ribosomal protein s21, mitochondrial (10 kDa, Protein from Mus musculus)
- Aurora kinase a-interacting protein (23 kDa, Protein from Mus musculus)
- 28s ribosomal protein s12, mitochondrial (15 kDa, Protein from Mus musculus)
- 28s ribosomal protein s34, mitochondrial (25 kDa, Protein from Mus musculus)
- 28s ribosomal protein s2, mitochondrial (32 kDa, Protein from Mus musculus)
- 28s ribosomal protein s26, mitochondrial (23 kDa, Protein from Mus musculus)
- Putative ribosome-binding factor a, mitochondrial (39 kDa, Protein from Mus musculus)
- 28s ribosomal protein s14, mitochondrial (14 kDa, Protein from Mus musculus)
- 28s ribosomal protein s18b, mitochondrial (28 kDa, Protein from Mus musculus)
- 28s ribosomal protein s6, mitochondrial (14 kDa, Protein from Mus musculus)
- Zinc ion (65 Da, Ligand)
- 28s ribosomal protein s23, mitochondrial (20 kDa, Protein from Mus musculus)
- 28s ribosomal protein s5, mitochondrial (48 kDa, Protein from Mus musculus)
- 28s ribosomal protein s16, mitochondrial (15 kDa, Protein from Mus musculus)
- Pentatricopeptide repeat domain-containing protein 3, mitochondrial (77 kDa, Protein from Mus musculus)
- Magnesium ion (24 Da, Ligand)
- 28s ribosomal protein s27, mitochondrial (47 kDa, Protein from Mus musculus)
- 28s ribosomal protein s15, mitochondrial (29 kDa, Protein from Mus musculus)