Human mitochondrial RNase Z with tRNA-His-CCA
Resolution: 2.96 Å
EM Method: Single-particle
Fitted PDBs: 9ey2
Q-score: 0.652
EMBO J (2024) 43 pp. 6573-6590 [ DOI: doi:10.1038/s44318-024-00297-w Pubmed: 39516281 ]
- Mt-trna-his-cca (22 kDa, RNA from Homo sapiens)
- Rnasez (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Trna methyltransferase 10 homolog c (42 kDa, Protein from Homo sapiens)
- Rnasez with mt-trna-his (250 kDa, Complex)
- Zinc phosphodiesterase elac protein 2 (89 kDa, Protein from Homo sapiens)
- S-adenosylmethionine (398 Da, Ligand)
- Mt-trna-his (Complex from Homo sapiens)
- 3-hydroxyacyl-coa dehydrogenase type-2 (26 kDa, Protein from Homo sapiens)
Human mitochondrial RNase Z with tRNA-His-CCA, SDR5C1/TRMT10C focus
Resolution: 1.9 Å
EM Method: Single-particle
Fitted PDBs: 9gch
Q-score: 0.737
EMBO J (2024) 43 pp. 6573-6590 [ DOI: doi:10.1038/s44318-024-00297-w Pubmed: 39516281 ]
- Mt-trna-his-cca (22 kDa, RNA from Homo sapiens)
- Rnasez (Complex from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Trna methyltransferase 10 homolog c (42 kDa, Protein from Homo sapiens)
- Rnasez with mt-trna-his (250 kDa, Complex)
- Magnesium ion (24 Da, Ligand)
- S-adenosylmethionine (398 Da, Ligand)
- Mt-trna-his (Complex from Homo sapiens)
- Water (18 Da, Ligand)
- 3-hydroxyacyl-coa dehydrogenase type-2 (26 kDa, Protein from Homo sapiens)
Human mitochondrial RNase Z with tRNA-His
Resolution: 2.78 Å
EM Method: Single-particle
Fitted PDBs: 9ey0
Q-score: 0.546
EMBO J (2024) 43 pp. 6573-6590 [ DOI: doi:10.1038/s44318-024-00297-w Pubmed: 39516281 ]
- Zinc ion (65 Da, Ligand)
- Rnasez (Complex from Homo sapiens)
- Mt-trna-his (22 kDa, RNA from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Zinc phosphodiesterase elac protein 2 (89 kDa, Protein from Homo sapiens)
- Rnasez with mt-trna-his (250 kDa, Complex)
- Trna methyltransferase 10 homolog c (42 kDa, Protein from Homo sapiens)
- S-adenosylmethionine (398 Da, Ligand)
- Mt-trna-his (Complex from Homo sapiens)
- 3-hydroxyacyl-coa dehydrogenase type-2 (26 kDa, Protein from Homo sapiens)
Human mitochondrial RNase Z with tRNA-His precursor
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 9ey1
Q-score: 0.523
EMBO J (2024) 43 pp. 6573-6590 [ DOI: doi:10.1038/s44318-024-00297-w Pubmed: 39516281 ]
- Zinc ion (65 Da, Ligand)
- Rnasez (Complex from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Rnasez with mt-trna-his (250 kDa, Complex)
- Trna methyltransferase 10 homolog c (42 kDa, Protein from Homo sapiens)
- S-adenosyl-l-homocysteine (384 Da, Ligand)
- Zinc phosphodiesterase elac protein 2 (89 kDa, Protein from Homo sapiens)
- Mt-trna-his (Complex from Homo sapiens)
- Trna-his-trna-ser (40 kDa, RNA from Homo sapiens)
- 3-hydroxyacyl-coa dehydrogenase type-2 (26 kDa, Protein from Homo sapiens)
cryoEM structure of SARS-CoV2 Spike trimer in complex with Fab23
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8q5y
Q-score: 0.516
Mandolesi M, Das H, de Vries L, Yang Y, Kim C, Dhinakaran M, Castro Dopico X, Fischbach J, Kim S, Guryleva MV, Adori M, Chernyshev M, Stalmarck A, Hanke L, McInerney GM, Sheward DJ, Corcoran M, Hallberg BM, Murrell B, Karlsson Hedestam GB
Nat Commun (2024) 15 pp. 6338-6338 [ DOI: doi:10.1038/s41467-024-50286-0 Pubmed: 39068149 ]
- Monoclonal antibody mab 23 (heavy chain) (48 kDa, Protein from Homo sapiens)
- Monoclonal antibody mab 23 (light chain) (23 kDa, Protein from Homo sapiens)
- Sars-cov2 spike trimer (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov2 spike (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV2 Omicron BA.1 RBD in complex with CAB-A17 antibody
Resolution: 2.68 Å
EM Method: Single-particle
Fitted PDBs: 8c0y
Q-score: 0.491
Sheward DJ, Pushparaj P, Das H, Greaney AJ, Kim C, Kim S, Hanke L, Hyllner E, Dyrdak R, Lee J, Dopico XC, Dosenovic P, Peacock TP, McInerney GM, Albert J, Corcoran M, Bloom JD, Murrell B, Karlsson Hedestam GB, Hallberg BM
Cell Rep Med (2024) 5 pp. 101577-101577 [ DOI: doi:10.1016/j.xcrm.2024.101577 Pubmed: 38761799 ]
- Sars-cov-2 omicron rbd (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike protein s2' (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Cab-a17 antibody (variable) (12 kDa, Protein from Homo sapiens)
- Cab-a17 antibody (fab) (Complex from Enterobacteria phage T4)
- Sars-cov2 omicron ba.1 spike in complex with cab-a17 antibody (95 kDa, Complex)
- Cab-a17 antibody (variable) (11 kDa, Protein from Homo sapiens)
SARS-CoV-2 Spike RBD in complex with Mab-23 (Fab)
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8p5m
Q-score: 0.554
Mandolesi M, Das H, de Vries L, Yang Y, Kim C, Dhinakaran M, Castro Dopico X, Fischbach J, Kim S, Guryleva MV, Adori M, Chernyshev M, Stalmarck A, Hanke L, McInerney GM, Sheward DJ, Corcoran M, Hallberg BM, Murrell B, Karlsson Hedestam GB
Nat Commun (2024) 15 pp. 6338-6338 [ DOI: doi:10.1038/s41467-024-50286-0 Pubmed: 39068149 ]
- Sars-cov-2 spike (rbd) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Mab-23 (heavy chain variable domain) (48 kDa, Protein from Homo sapiens)
- Monoclonal antibody mab-23 (Complex from Enterobacteria phage T4)
- Spike rbd (two molecules) in complex with two fu2 nanobodies (95 kDa, Complex)
- Mab-23 (light chain variable domain) (23 kDa, Protein from Homo sapiens)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV2 Omicron BA.1 spike in complex with CAB-A17 antibody
Resolution: 2.56 Å
EM Method: Single-particle
Fitted PDBs: 8c2r
Q-score: 0.436
Sheward DJ, Pushparaj P, Das H, Greaney AJ, Kim C, Kim S, Hanke L, Hyllner E, Dyrdak R, Lee J, Dopico XC, Dosenovic P, Peacock TP, McInerney GM, Albert J, Corcoran M, Bloom JD, Murrell B, Karlsson Hedestam GB, Hallberg BM
Cell Rep Med (2024) 5 pp. 101577-101577 [ DOI: doi:10.1016/j.xcrm.2024.101577 Pubmed: 38761799 ]
- Cab-a17 antibody (lc) (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Cab-a17 antibody (fab) (Complex from Enterobacteria phage T4)
- Sars-cov2 omicron ba.1 spike (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov2 omicron ba.1 spike in complex with cab-a17 antibody (95 kDa, Complex)
- Spike glycoprotein (124 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Cab-a17 antibody (hc) (22 kDa, Protein from Homo sapiens)
SARS Cov2 Spike RBD in complex with Fab47
Resolution: 2.64 Å
EM Method: Single-particle
Fitted PDBs: 8a95
Q-score: 0.269
Pushparaj P, Nicoletto A, Sheward DJ, Das H, Castro Dopico X, Perez Vidakovics L, Hanke L, Chernyshev M, Narang S, Kim S, Fischbach J, Ekstrom S, McInerney G, Hallberg BM, Murrell B, Corcoran M, Karlsson Hedestam GB
Immunity (2023) 56 pp. 193-206.e7 [ Pubmed: 36574772 DOI: doi:10.1016/j.immuni.2022.12.005 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov2 trimeric spike in 1-up conformation in complex with three fab47 (142 kDa, Protein from Severe acute respiratory syndrome coronavirus)
- Fab47 (light chain variable domain) (11 kDa, Protein from Homo sapiens)
- Sars-cov-2 spike in complex with fab47 (629 MDa, Complex from Homo sapiens)
- Fab47 (heavy chain variable domain) (13 kDa, Protein from Homo sapiens)
SARS Cov2 Spike in 1-up conformation complex with Fab47
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 8a99
Q-score: 0.33
Pushparaj P, Nicoletto A, Sheward DJ, Das H, Castro Dopico X, Perez Vidakovics L, Hanke L, Chernyshev M, Narang S, Kim S, Fischbach J, Ekstrom S, McInerney G, Hallberg BM, Murrell B, Corcoran M, Karlsson Hedestam GB
Immunity (2023) 56 pp. 193-206.e7 [ Pubmed: 36574772 DOI: doi:10.1016/j.immuni.2022.12.005 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov2 spike 1-up conformation in complex with fab47 (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Fab47 (light chain variable domain) (11 kDa, Protein from Homo sapiens)
- Fab47 (heavy chain variable domain) (13 kDa, Protein from Homo sapiens)
- Sars-cov-2 spike 1-up conformation in complex with fab47 (629 MDa, Complex from Homo sapiens)