mt-SSU assembly intermediate in GTPBP8 knock-out cells, state 1
Cipullo M, Valentin Gese G, Gopalakrishna S, Krueger A, Lobo V, Pirozhkova MA, Marks J, Palenikova P, Shiriaev D, Liu Y, Misic J, Cai Y, Nguyen MD, Abdelbagi A, Li X, Minczuk M, Hafner M, Benhalevy D, Sarshad AA, Atanassov I, Hallberg BM, Rorbach J
Nat Commun (2024) 15 pp. 5664-5664 [ Pubmed: 38969660 DOI: doi:10.1038/s41467-024-50011-x ]
mt-SSU assembly intermediate in GTPBP8 knock-out cells, state 2
Cipullo M, Valentin Gese G, Gopalakrishna S, Krueger A, Lobo V, Pirozhkova MA, Marks J, Palenikova P, Shiriaev D, Liu Y, Misic J, Cai Y, Nguyen MD, Abdelbagi A, Li X, Minczuk M, Hafner M, Benhalevy D, Sarshad AA, Atanassov I, Hallberg BM, Rorbach J
Nat Commun (2024) 15 pp. 5664-5664 [ Pubmed: 38969660 DOI: doi:10.1038/s41467-024-50011-x ]
mt-SSU assembly intermediate in GTPBP8 knock-out cells, state 3
Cipullo M, Valentin Gese G, Gopalakrishna S, Krueger A, Lobo V, Pirozhkova MA, Marks J, Palenikova P, Shiriaev D, Liu Y, Misic J, Cai Y, Nguyen MD, Abdelbagi A, Li X, Minczuk M, Hafner M, Benhalevy D, Sarshad AA, Atanassov I, Hallberg BM, Rorbach J
Nat Commun (2024) 15 pp. 5664-5664 [ Pubmed: 38969660 DOI: doi:10.1038/s41467-024-50011-x ]
mt-SSU assembly intermediate in GTPBP8 knock-out cells, state 4
Cipullo M, Valentin Gese G, Gopalakrishna S, Krueger A, Lobo V, Pirozhkova MA, Marks J, Palenikova P, Shiriaev D, Liu Y, Misic J, Cai Y, Nguyen MD, Abdelbagi A, Li X, Minczuk M, Hafner M, Benhalevy D, Sarshad AA, Atanassov I, Hallberg BM, Rorbach J
Nat Commun (2024) 15 pp. 5664-5664 [ Pubmed: 38969660 DOI: doi:10.1038/s41467-024-50011-x ]
mt-LSU assembly intermediate in GTPBP8 knock-out cells, state 1
Cipullo M, Valentin Gese G, Gopalakrishna S, Krueger A, Lobo V, Pirozhkova MA, Marks J, Palenikova P, Shiriaev D, Liu Y, Misic J, Cai Y, Nguyen MD, Abdelbagi A, Li X, Minczuk M, Hafner M, Benhalevy D, Sarshad AA, Atanassov I, Hallberg BM, Rorbach J
Nat Commun (2024) 15 pp. 5664-5664 [ Pubmed: 38969660 DOI: doi:10.1038/s41467-024-50011-x ]
mt-LSU assembly intermediate in GTPBP8 knock-out cells, state 2
Cipullo M, Valentin Gese G, Gopalakrishna S, Krueger A, Lobo V, Pirozhkova MA, Marks J, Palenikova P, Shiriaev D, Liu Y, Misic J, Cai Y, Nguyen MD, Abdelbagi A, Li X, Minczuk M, Hafner M, Benhalevy D, Sarshad AA, Atanassov I, Hallberg BM, Rorbach J
Nat Commun (2024) 15 pp. 5664-5664 [ Pubmed: 38969660 DOI: doi:10.1038/s41467-024-50011-x ]
Human mitochondrial ribosome small subunit in complex with streptomycin
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 ]
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)
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)