GroEL:GroES-ATP complex under continuous turnover condirions
Resolution: 2.3 Å
EM Method: Single-particle
Fitted PDBs: 8bkz
Q-score: 0.632
Torino S, Dhurandhar M, Stroobants A, Claessens R, Efremov RG
Nat Methods (2023) 20 pp. 1400-1408 [ Pubmed: 37592181 DOI: doi:10.1038/s41592-023-01967-z ]
- Hetero 14mer assembled from 2 heptameric rings (950 kDa, Complex from Escherichia coli)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Water (18 Da, Ligand)
- Potassium ion (39 Da, Ligand)
- Co-chaperonin groes (10 kDa, Protein from Escherichia coli)
- Chaperonin groel (57 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
Structure of GroEL-ATP complex plunge frozen 200 ms after reaction initiation
Resolution: 2.3 Å
EM Method: Single-particle
Fitted PDBs: 8bl2
Q-score: 0.465
Torino S, Dhurandhar M, Stroobants A, Claessens R, Efremov RG
Nat Methods (2023) 20 pp. 1400-1408 [ Pubmed: 37592181 DOI: doi:10.1038/s41592-023-01967-z ]
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Potassium ion (39 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Chaperonin groel (57 kDa, Protein from Escherichia coli)
- Water (18 Da, Ligand)
- Groel in complex with atp (800 kDa, Complex from Escherichia coli)
Structure of the GroEL-ATP complex plunge-frozen 50 ms after mixing with ATP
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8blc
Q-score: 0.462
Torino S, Dhurandhar M, Stroobants A, Claessens R, Efremov RG
Nat Methods (2023) 20 pp. 1400-1408 [ Pubmed: 37592181 DOI: doi:10.1038/s41592-023-01967-z ]
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Groel in complex with atp (800 kDa, Complex from Escherichia coli)
- Water (18 Da, Ligand)
- Potassium ion (39 Da, Ligand)
- Chaperonin groel (57 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
Structure of GroEL:GroES-ATP complex plunge frozen 200 ms after reaction initiation
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8bm0
Q-score: 0.401
Torino S, Dhurandhar M, Stroobants A, Claessens R, Efremov RG
Nat Methods (2023) 20 pp. 1400-1408 [ Pubmed: 37592181 DOI: doi:10.1038/s41592-023-01967-z ]
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Potassium ion (39 Da, Ligand)
- Co-chaperonin groes (10 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Chaperonin groel (57 kDa, Protein from Escherichia coli)
- Groel:groes-atp complex (950 kDa, Complex from Escherichia coli)
Structure of GroEL:GroES-ATP complex under continuous turnover conditions
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8bm1
Q-score: 0.518
Torino S, Dhurandhar M, Stroobants A, Claessens R, Efremov RG
Nat Methods (2023) 20 pp. 1400-1408 [ Pubmed: 37592181 DOI: doi:10.1038/s41592-023-01967-z ]
- Hetero 14mer assembled from 2 heptameric rings (950 kDa, Complex from Escherichia coli)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Co-chaperonin groes (10 kDa, Protein from Escherichia coli)
- Water (18 Da, Ligand)
- Potassium ion (39 Da, Ligand)
- Chaperonin groel (57 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
Structure of GroEL-ATP complex under continuous turnover conditions
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8bmd
Q-score: 0.434
Torino S, Dhurandhar M, Stroobants A, Claessens R, Efremov RG
Nat Methods (2023) 20 pp. 1400-1408 [ Pubmed: 37592181 DOI: doi:10.1038/s41592-023-01967-z ]
- Groel in complex with atp under continuous turnover of atp (800 kDa, Complex from Escherichia coli)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Water (18 Da, Ligand)
- Potassium ion (39 Da, Ligand)
- Chaperonin groel (57 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
Structure of GroEL:GroES-ATP complex plunge frozen 200 ms after reaction initiation
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 8bmt
Q-score: 0.469
Torino S, Dhurandhar M, Stroobants A, Claessens R, Efremov RG
Nat Methods (2023) 20 pp. 1400-1408 [ Pubmed: 37592181 DOI: doi:10.1038/s41592-023-01967-z ]
- Groel and groes (Complex from Escherichia coli)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Potassium ion (39 Da, Ligand)
- Co-chaperonin groes (10 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Chaperonin groel (57 kDa, Protein from Escherichia coli)
- Water (18 Da, Ligand)
Human nucleolar pre-60S ribosomal subunit (State G) - Composite map
Resolution: 3.04 Å
EM Method: Single-particle
Fitted PDBs: 8fkz
Q-score: 0.47
Science (2023) 381 pp. eadh3892-eadh3892 [ DOI: doi:10.1126/science.adh3892 Pubmed: 37410842 ]
- Potassium ion (39 Da, Ligand)
- 60s ribosomal protein l30 (12 kDa, Protein from Homo sapiens)
- Ribosomal l1 domain-containing protein 1 (55 kDa, Protein from Homo sapiens)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
- Ribosome biogenesis protein nop53 (54 kDa, Protein from Homo sapiens)
- Protein llp homolog (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l6 (32 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13 (24 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27a (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
- Nucleolar gtp-binding protein 2 (83 kDa, Protein from Homo sapiens)
- Gtp-binding protein 4 (74 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 60s ribosomal protein l37a (10 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7 (29 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l19 (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l8 (28 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l22 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
- 28s rrna (1 MDa, RNA from Homo sapiens)
- 60s ribosomal protein l34 (13 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein-like 3 (62 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37 (11 kDa, Protein from Homo sapiens)
- Probable ribosome biogenesis protein rlp24 (19 kDa, Protein from Homo sapiens)
- Ribosome biogenesis protein nsa2 homolog (30 kDa, Protein from Homo sapiens)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 5.8s rrna (50 kDa, RNA from Homo sapiens)
- 60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l39 (6 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l12 (17 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
- Mki67 fha domain-interacting nucleolar phosphoprotein (34 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l38 (8 kDa, Protein from Homo sapiens)
- Its2 rrna (376 kDa, RNA from Homo sapiens)
- 60s ribosomal protein l4 (47 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7-like 1 (29 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
- Mrna turnover protein 4 homolog (27 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
- Human nucleolar pre-60s ribosomal subunit (state g) (Complex from Homo sapiens)
- 60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
- Pescadillo homolog (68 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l3 (46 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
Human nuclear pre-60S ribosomal subunit (State I1) - Composite map
Resolution: 2.67 Å
EM Method: Single-particle
Fitted PDBs: 8fl2
Q-score: 0.544
Science (2023) 381 pp. eadh3892-eadh3892 [ DOI: doi:10.1126/science.adh3892 Pubmed: 37410842 ]
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Gtp-binding protein 4 (74 kDa, Protein from human)
- 60s ribosomal protein l26 (17 kDa, Protein from human)
- 28s rrna (1 MDa, RNA from human)
- Pescadillo homolog (68 kDa, Protein from human)
- 60s ribosomal protein l38 (8 kDa, Protein from human)
- 5s rrna (38 kDa, RNA from human)
- Human nuclear pre-60s ribosomal subunit (state i1) (Complex from Homo sapiens)
- 60s ribosomal protein l15 (24 kDa, Protein from human)
- 60s ribosomal protein l36 (12 kDa, Protein from human)
- Ribosomal l1 domain-containing protein 1 (55 kDa, Protein from human)
- 60s ribosomal protein l27a (16 kDa, Protein from human)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- 60s ribosomal protein l18a (20 kDa, Protein from human)
- Zinc finger protein 593 (15 kDa, Protein from human)
- Protein llp homolog (15 kDa, Protein from human)
- Mki67 fha domain-interacting nucleolar phosphoprotein (34 kDa, Protein from human)
- 60s ribosomal protein l23a (17 kDa, Protein from human)
- 60s ribosomal protein l8 (28 kDa, Protein from human)
- 60s ribosomal protein l7-like 1 (29 kDa, Protein from human)
- 60s ribosomal protein l35a (12 kDa, Protein from human)
- Ribosomal biogenesis protein las1l (83 kDa, Protein from human)
- 60s ribosomal protein l37a (10 kDa, Protein from human)
- 60s ribosomal protein l37 (11 kDa, Protein from human)
- Testis-expressed protein 10 (105 kDa, Protein from human)
- Proline-, glutamic acid- and leucine-rich protein 1 (119 kDa, Protein from human)
- 60s ribosomal protein l30 (12 kDa, Protein from human)
- Potassium ion (39 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)
- Guanine nucleotide-binding protein-like 3 (62 kDa, Protein from human)
- 60s ribosomal protein l35 (14 kDa, Protein from human)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from human)
- Zinc ion (65 Da, Ligand)
- Coiled-coil domain-containing protein 86 (40 kDa, Protein from human)
- 60s ribosomal protein l10a (24 kDa, Protein from human)
- 60s ribosomal protein l23 (14 kDa, Protein from human)
- Nucleolar gtp-binding protein 2 (83 kDa, Protein from human)
- Its2 rrna (376 kDa, RNA from human)
- 60s ribosomal protein l7 (29 kDa, Protein from human)
- 60s ribosomal protein l32 (15 kDa, Protein from human)
- 60s ribosomal protein l22 (14 kDa, Protein from human)
- 60s ribosomal protein l11 (20 kDa, Protein from human)
- 60s ribosomal protein l7a (30 kDa, Protein from human)
- 60s ribosomal protein l9 (21 kDa, Protein from human)
- Wd repeat-containing protein 18 (47 kDa, Protein from human)
- 60s ribosomal protein l21 (18 kDa, Protein from human)
- 60s ribosomal protein l27 (15 kDa, Protein from human)
- 60s ribosomal protein l4 (47 kDa, Protein from human)
- Probable ribosome biogenesis protein rlp24 (19 kDa, Protein from human)
- 60s ribosomal protein l5 (34 kDa, Protein from human)
- 60s ribosomal protein l6 (32 kDa, Protein from human)
- Magnesium ion (24 Da, Ligand)
- 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)
- Ribosome biogenesis protein nsa2 homolog (30 kDa, Protein from human)
- Ribosome biogenesis protein nop53 (54 kDa, Protein from human)
- 60s ribosomal protein l28 (15 kDa, Protein from human)
- Notchless protein homolog 1 (53 kDa, Protein from human)
- 60s ribosomal protein l12 (17 kDa, Protein from human)
- Mrna turnover protein 4 homolog (27 kDa, Protein from human)
- 5.8s rrna (50 kDa, RNA from human)
- 60s ribosomal protein l19 (23 kDa, Protein from human)
- 60s ribosomal protein l14 (23 kDa, Protein from human)
- 60s ribosomal protein l3 (46 kDa, Protein from human)
- 60s ribosomal protein l39 (6 kDa, Protein from human)
- Protein sda1 homolog (80 kDa, Protein from human)
Human nuclear pre-60S ribosomal subunit (State I2) - Composite map
Resolution: 2.53 Å
EM Method: Single-particle
Fitted PDBs: 8fl3
Q-score: 0.563
Science (2023) 381 pp. eadh3892-eadh3892 [ DOI: doi:10.1126/science.adh3892 Pubmed: 37410842 ]
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Gtp-binding protein 4 (74 kDa, Protein from human)
- 60s ribosomal protein l26 (17 kDa, Protein from human)
- Human nuclear pre-60s ribosomal subunit (state i2) (Complex from Homo sapiens)
- 28s rrna (1 MDa, RNA from human)
- Pescadillo homolog (68 kDa, Protein from human)
- 60s ribosomal protein l38 (8 kDa, Protein from human)
- 5s rrna (38 kDa, RNA from human)
- 60s ribosomal protein l36 (12 kDa, Protein from human)
- 60s ribosomal protein l15 (24 kDa, Protein from human)
- 60s ribosomal protein l27a (16 kDa, Protein from human)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- 60s ribosomal protein l18a (20 kDa, Protein from human)
- Zinc finger protein 593 (15 kDa, Protein from human)
- Protein llp homolog (15 kDa, Protein from human)
- Mki67 fha domain-interacting nucleolar phosphoprotein (34 kDa, Protein from human)
- 60s ribosomal protein l23a (17 kDa, Protein from human)
- 60s ribosomal protein l8 (28 kDa, Protein from human)
- 60s ribosomal protein l7-like 1 (29 kDa, Protein from human)
- 60s ribosomal protein l35a (12 kDa, Protein from human)
- Ribosomal biogenesis protein las1l (83 kDa, Protein from human)
- 60s ribosomal protein l37a (10 kDa, Protein from human)
- 60s ribosomal protein l37 (11 kDa, Protein from human)
- Testis-expressed protein 10 (105 kDa, Protein from human)
- Proline-, glutamic acid- and leucine-rich protein 1 (119 kDa, Protein from human)
- 60s ribosomal protein l30 (12 kDa, Protein from human)
- Potassium ion (39 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)
- Guanine nucleotide-binding protein-like 3 (62 kDa, Protein from human)
- 60s ribosomal protein l35 (14 kDa, Protein from human)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from human)
- Zinc ion (65 Da, Ligand)
- Coiled-coil domain-containing protein 86 (40 kDa, Protein from human)
- 60s ribosomal protein l10a (24 kDa, Protein from human)
- 60s ribosomal protein l23 (14 kDa, Protein from human)
- Nucleolar gtp-binding protein 2 (83 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 l22 (14 kDa, Protein from human)
- 60s ribosomal protein l11 (20 kDa, Protein from human)
- 60s ribosomal protein l7a (30 kDa, Protein from human)
- 60s ribosomal protein l9 (21 kDa, Protein from human)
- Wd repeat-containing protein 18 (47 kDa, Protein from human)
- 60s ribosomal protein l21 (18 kDa, Protein from human)
- 60s ribosomal protein l27 (15 kDa, Protein from human)
- 60s ribosomal protein l4 (47 kDa, Protein from human)
- Probable ribosome biogenesis protein rlp24 (19 kDa, Protein from human)
- 60s ribosomal protein l5 (34 kDa, Protein from human)
- 60s ribosomal protein l6 (32 kDa, Protein from human)
- Magnesium ion (24 Da, Ligand)
- 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)
- Ribosome biogenesis protein nsa2 homolog (30 kDa, Protein from human)
- Ribosome biogenesis protein nop53 (54 kDa, Protein from human)
- 60s ribosomal protein l28 (15 kDa, Protein from human)
- Notchless protein homolog 1 (53 kDa, Protein from human)
- 60s ribosomal protein l12 (17 kDa, Protein from human)
- Mrna turnover protein 4 homolog (27 kDa, Protein from human)
- 5.8s rrna (50 kDa, RNA from human)
- 60s ribosomal protein l19 (23 kDa, Protein from human)
- 60s ribosomal protein l14 (23 kDa, Protein from human)
- 60s ribosomal protein l3 (46 kDa, Protein from human)
- 60s ribosomal protein l39 (6 kDa, Protein from human)
- Protein sda1 homolog (80 kDa, Protein from human)