Damaged 70S ribosome with PrfH bound
Resolution: 2.65 Å
EM Method: Single-particle
Fitted PDBs: 9mor
Q-score: 0.367
Tian Y, Li Q, Fatma S, Jiang J, Jin H, Zeng F, Huang RH
bioRxiv (2025) [ Pubmed: 39829893 DOI: doi:10.1101/2025.01.09.632186 ]
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl25 (10 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul6 (18 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl17 (14 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul22 (12 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl19 (13 kDa, Protein from Escherichia coli)
- Peptide chain release factor h (26 kDa, Protein from Capnocytophaga gingivalis)
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l10 (17 kDa, Protein from Escherichia coli)
- 50s (Complex)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul18 (12 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s3 (26 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli)
- Water (18 Da, Ligand)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul14 (13 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl27 (9 kDa, Protein from Escherichia coli)
- Damaged 70s with prfh (Complex from Escherichia coli)
- Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us10 (11 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- 30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli)
- Trna (Cellular component)
- P-trna, e-trna (24 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l11 (14 kDa, Protein from Escherichia coli)
- Mrna (8 kDa, RNA from Escherichia coli)
- Large ribosomal subunit protein ul5 (20 kDa, Protein from Escherichia coli)
- 16s ribosomal rna (497 kDa, RNA from Escherichia coli)
- 30s (Complex)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl9 (15 kDa, Protein from Escherichia coli)
- Putative peptide chain release factor homolog (Cellular component)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl21 (11 kDa, Protein from Escherichia coli)
Damaged 70S ribosome with PrfH bound
Resolution: 2.78 Å
EM Method: Single-particle
Fitted PDBs: 9mq4
Q-score: 0.462
Tian Y, Li Q, Fatma S, Jiang J, Jin H, Zeng F, Huang RH
bioRxiv (2025) [ Pubmed: 39829893 DOI: doi:10.1101/2025.01.09.632186 ]
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl25 (10 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul6 (18 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl17 (14 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul22 (12 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl19 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l10 (17 kDa, Protein from Escherichia coli)
- 50s (Complex)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul18 (12 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s3 (26 kDa, Protein from Escherichia coli)
- 16s ribosomal rna (497 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- Peptide chain release factor h (26 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- Water (18 Da, Ligand)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul14 (13 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl27 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli 0.1197)
- Damaged 70s with prfh (Complex from Escherichia coli)
- Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us10 (11 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- 30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli)
- Trna (Cellular component)
- P-trna, e-trna (24 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l11 (14 kDa, Protein from Escherichia coli)
- Mrna (8 kDa, RNA from Escherichia coli)
- Large ribosomal subunit protein ul5 (20 kDa, Protein from Escherichia coli)
- 30s (Complex)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl9 (15 kDa, Protein from Escherichia coli)
- Putative peptide chain release factor homolog (Cellular component)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl21 (11 kDa, Protein from Escherichia coli)
Cryo-EM structure of 6-subunit Smc5/6
Resolution: 6.9 Å
EM Method: Single-particle
Fitted PDBs: 8i13
Q-score: 0.088
Li Q, Zhang J, Haluska C, Zhang X, Wang L, Liu G, Wang Z, Jin D, Cheng T, Wang H, Tian Y, Wang X, Sun L, Zhao X, Chen Z, Wang L
Nat Struct Mol Biol (2024) 31 pp. 1532-1542 [ Pubmed: 38890552 DOI: doi:10.1038/s41594-024-01319-1 ]
- Cryo-em structure of 6-subunit smc5/6 (Complex from Saccharomyces cerevisiae)
- Non-structural maintenance of chromosomes element 1 homolog (38 kDa, Protein from Saccharomyces cerevisiae)
- Smc6 isoform 1 (128 kDa, Protein from Saccharomyces cerevisiae)
- Mms21 isoform 1 (30 kDa, Protein from Saccharomyces cerevisiae)
- Structural maintenance of chromosomes protein 5 (126 kDa, Protein from Saccharomyces cerevisiae)
- Non-structural maintenance of chromosomes element 4 (46 kDa, Protein from Saccharomyces cerevisiae)
- Nse3 isoform 1 (34 kDa, Protein from Saccharomyces cerevisiae)
Cryo-EM structure of 6-subunit Smc5/6 arm region
Resolution: 6.02 Å
EM Method: Single-particle
Fitted PDBs: 8i21
Q-score: 0.127
Li Q, Zhang J, Haluska C, Zhang X, Wang L, Liu G, Wang Z, Jin D, Cheng T, Wang H, Tian Y, Wang X, Sun L, Zhao X, Chen Z, Wang L
Nat Struct Mol Biol (2024) 31 pp. 1532-1542 [ Pubmed: 38890552 DOI: doi:10.1038/s41594-024-01319-1 ]
- E3 sumo-protein ligase mms21 (30 kDa, Protein from Saccharomyces cerevisiae S288C)
- Structural maintenance of chromosomes protein 6 (128 kDa, Protein from Saccharomyces cerevisiae S288C)
- Structural maintenance of chromosomes protein 5 (126 kDa, Protein from Saccharomyces cerevisiae S288C)
- Cryo-em structure of 6-subunit smc5/6 arm region (Complex from Saccharomyces cerevisiae)
Cryo-EM structure of 5-subunit Smc5/6 hinge region
Resolution: 6.73 Å
EM Method: Single-particle
Fitted PDBs: 8i4u
Q-score: 0.189
Li Q, Zhang J, Haluska C, Zhang X, Wang L, Liu G, Wang Z, Jin D, Cheng T, Wang H, Tian Y, Wang X, Sun L, Zhao X, Chen Z, Wang L
Nat Struct Mol Biol (2024) 31 pp. 1532-1542 [ Pubmed: 38890552 DOI: doi:10.1038/s41594-024-01319-1 ]
- E3 sumo-protein ligase mms21 (30 kDa, Protein from Saccharomyces cerevisiae S288C)
- Cryo-em structure of 5-subunit smc5/6 hinge region (Complex from Saccharomyces cerevisiae S288c)
- Structural maintenance of chromosomes protein 5 (126 kDa, Protein from Saccharomyces cerevisiae S288C)
- Structural maintenance of chromosomes protein 6 (128 kDa, Protein from Saccharomyces cerevisiae S288C)
Cryo-EM structure of 5-subunit Smc5/6 arm region
Resolution: 5.97 Å
EM Method: Single-particle
Fitted PDBs: 8i4v
Q-score: 0.108
Li Q, Zhang J, Haluska C, Zhang X, Wang L, Liu G, Wang Z, Jin D, Cheng T, Wang H, Tian Y, Wang X, Sun L, Zhao X, Chen Z, Wang L
Nat Struct Mol Biol (2024) 31 pp. 1532-1542 [ Pubmed: 38890552 DOI: doi:10.1038/s41594-024-01319-1 ]
- Cryo-em structure of 5-subunit smc5/6 arm region (Complex from Saccharomyces cerevisiae)
- E3 sumo-protein ligase mms21 (28 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna repair protein kre29 (7 kDa, Protein from Saccharomyces cerevisiae S288C)
- Structural maintenance of chromosomes protein 5 (123 kDa, Protein from Saccharomyces cerevisiae S288C)
- Structural maintenance of chromosomes protein 6 (128 kDa, Protein from Saccharomyces cerevisiae S288C)
Cryo-EM structure of 5-subunit Smc5/6 head region
Resolution: 6.01 Å
EM Method: Single-particle
Fitted PDBs: 8i4w
Q-score: 0.067
Li Q, Zhang J, Haluska C, Zhang X, Wang L, Liu G, Wang Z, Jin D, Cheng T, Wang H, Tian Y, Wang X, Sun L, Zhao X, Chen Z, Wang L
Nat Struct Mol Biol (2024) 31 pp. 1532-1542 [ Pubmed: 38890552 DOI: doi:10.1038/s41594-024-01319-1 ]
- Non-structural maintenance of chromosome element 5 (64 kDa, Protein from Saccharomyces cerevisiae S288C)
- Dna repair protein kre29 (53 kDa, Protein from Saccharomyces cerevisiae S288C)
- Structural maintenance of chromosomes protein 5 (126 kDa, Protein from Saccharomyces cerevisiae S288C)
- Cryo-em structure of 5-subunit smc5/6 head region (Complex from Saccharomyces cerevisiae S288c)
- Structural maintenance of chromosomes protein 6 (128 kDa, Protein from Saccharomyces cerevisiae S288C)
Cryo-EM structure of 5-subunit Smc5/6
Resolution: 8.5 Å
EM Method: Single-particle
Fitted PDBs: 8i4x
Q-score: 0.019
Li Q, Zhang J, Haluska C, Zhang X, Wang L, Liu G, Wang Z, Jin D, Cheng T, Wang H, Tian Y, Wang X, Sun L, Zhao X, Chen Z, Wang L
Nat Struct Mol Biol (2024) 31 pp. 1532-1542 [ Pubmed: 38890552 DOI: doi:10.1038/s41594-024-01319-1 ]
- Structural maintenance of chromosomes protein 6 (126 kDa, Protein from Saccharomyces cerevisiae S288C)
- Cryo-em structure of 5-subunit smc5/6 (Complex from Saccharomyces cerevisiae S288C)
- Non-structural maintenance of chromosome element 5 (64 kDa, Protein from Saccharomyces cerevisiae S288C)
- Structural maintenance of chromosomes protein 5 (123 kDa, Protein from Saccharomyces cerevisiae S288C)
- Nse6 (44 kDa, Protein from Saccharomyces cerevisiae S288C)
- E3 sumo-protein ligase mms21 (30 kDa, Protein from Saccharomyces cerevisiae S288C)
Cryo-EM structure of 6-subunit Smc5/6 hinge region
Resolution: 6.15 Å
EM Method: Single-particle
Fitted PDBs: 8wjl
Q-score: 0.189
Li Q, Zhang J, Haluska C, Zhang X, Wang L, Liu G, Wang Z, Jin D, Cheng T, Wang H, Tian Y, Wang X, Sun L, Zhao X, Chen Z, Wang L
Nat Struct Mol Biol (2024) 31 pp. 1532-1542 [ Pubmed: 38890552 DOI: doi:10.1038/s41594-024-01319-1 ]
- E3 sumo-protein ligase mms21 (30 kDa, Protein from Saccharomyces cerevisiae S288C)
- Structural maintenance of chromosomes protein 6 (128 kDa, Protein from Saccharomyces cerevisiae S288C)
- 6-subunit smc5/6 complex (Complex from Saccharomyces cerevisiae S288C)
- Structural maintenance of chromosomes protein 5 (126 kDa, Protein from Saccharomyces cerevisiae S288C)
Cryo-EM structure of 6-subunit Smc5/6 head region
Resolution: 5.58 Å
EM Method: Single-particle
Fitted PDBs: 8wjn
Q-score: 0.198
Li Q, Zhang J, Haluska C, Zhang X, Wang L, Liu G, Wang Z, Jin D, Cheng T, Wang H, Tian Y, Wang X, Sun L, Zhao X, Chen Z, Wang L
Nat Struct Mol Biol (2024) 31 pp. 1532-1542 [ Pubmed: 38890552 DOI: doi:10.1038/s41594-024-01319-1 ]
- Cryo-em structure of 6-subunit smc5/6 head region (Complex from Saccharomyces cerevisiae)
- Structural maintenance of chromosomes protein 5 (126 kDa, Protein from Saccharomyces cerevisiae S288C)
- Non-structural maintenance of chromosome element 3 (34 kDa, Protein from Saccharomyces cerevisiae S288C)
- Non-structural maintenance of chromosomes element 4 (46 kDa, Protein from Saccharomyces cerevisiae S288C)
- Non-structural maintenance of chromosomes element 1 (38 kDa, Protein from Saccharomyces cerevisiae S288C)
- Structural maintenance of chromosomes protein 6 (128 kDa, Protein from Saccharomyces cerevisiae S288C)