Local refined cryo-EM reconstruction of Omicron BA.5 RBD in complex with 8-9D Fab
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8j1t
Q-score: 0.455
Tai W, Yang K, Liu Y, Li R, Feng S, Chai B, Zhuang X, Qi S, Shi H, Liu Z, Lei J, Ma E, Wang W, Tian C, Le T, Wang J, Chen Y, Tian M, Xiang Y, Yu G, Cheng G
Nat Commun (2023) 14 pp. 8042-8042 [ DOI: doi:10.1038/s41467-023-43798-8 Pubmed: 38052844 ]
- 8-9d heavy chain (12 kDa, Protein from Homo sapiens)
- 8-9d light chain (11 kDa, Protein from Homo sapiens)
- Sars-cov2 omicron ba.5 rbd (Complex)
- 8-9d fab (Complex from Homo sapiens)
- Spike protein (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Severe acute respiratory syndrome coronavirus 2 omicron ba.5 rbd bound 8-9d fab (22 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
Cryo-EM reconstruction of SARS-CoV2 Omicron BA.5 spike in complex with 8-9D Fabs
Resolution: 3.01 Å
EM Method: Single-particle
Fitted PDBs: 8j1v
Q-score: 0.374
Tai W, Yang K, Liu Y, Li R, Feng S, Chai B, Zhuang X, Qi S, Shi H, Liu Z, Lei J, Ma E, Wang W, Tian C, Le T, Wang J, Chen Y, Tian M, Xiang Y, Yu G, Cheng G
Nat Commun (2023) 14 pp. 8042-8042 [ DOI: doi:10.1038/s41467-023-43798-8 Pubmed: 38052844 ]
- 8-9d heavy chain (12 kDa, Protein from Homo sapiens)
- 8-9d light chain (11 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Severe acute respiratory syndrome coronavirus 2 omicron ba.5 spike bound 8-9d fab (369 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- 8-9d fab variable region (Complex from Homo sapiens)
- Spike protein s2' (123 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov2 omicron ba.5 spike ectodomain (Complex)
Liu JJ, Orlova N, Oakes BL, Ma E, Spinner HB, Baney KLM, Jonathan C, Tan D, Knott G, Wanger A, Harrington L, Nogales E, Doudna JA
Nature (2019) 566 pp. 218-223 [ ]
- Apocasx (Complex from Deltaproteobacteria)
Liu JJ, Orlova N, Oakes BL, Ma E, Spinner HB, Baney KLM, Jonathan C, Tan D, Knott G, Wanger A, Harrington L, Nogales E, Doudna JA
Nature (2019) 566 pp. 218-223 [ ]
CasX-gRNA-DNA (45T-20NT) State I
Liu JJ, Orlova N, Oakes BL, Ma E, Spinner HB, Baney KLM, Jonathan C, Tan D, Knott G, Wanger A, Harrington L, Nogales E, Doudna JA
Nature (2019) 566 pp. 218-223 [ ]
CasX-gRNA-DNA (45T-20NT) State II
Liu JJ, Orlova N, Oakes BL, Ma E, Spinner HB, Baney KLM, Jonathan C, Tan D, Knott G, Wanger A, Harrington L, Nogales E, Doudna JA
Nature (2019) 566 pp. 218-223 [ ]
CasX-gRNA-DNA (45T-45NT) State II
Liu JJ, Orlova N, Oakes BL, Ma E, Spinner HB, Baney KLM, Jonathan C, Tan D, Knott G, Wanger A, Harrington L, Nogales E, Doudna JA
Nature (2019) 566 pp. 218-223 [ ]
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 6ny1
Q-score: 0.368
Liu JJ, Orlova N, Oakes BL, Ma E, Spinner HB, Baney KLM, Jonathan C, Tan D, Knott G, Wanger A, Harrington L, Nogales E, Doudna JA
Nature (2019) 566 pp. 218-223 [ ]
CasX ternary complex with 30bp target DNA
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6ny3
Q-score: 0.465
Liu JJ, Orlova N, Oakes BL, Ma E, Spinner HB, Baney KLM, Chuck J, Tan D, Knott GJ, Harrington LB, Al-Shayeb B, Wagner A, Brotzmann J, Staahl BT, Taylor KL, Desmarais J, Nogales E, Doudna JA
Nature (2019) 566 pp. 218-223 [ Pubmed: 30718774 DOI: doi:10.1038/s41586-019-0908-x ]
- Dna (30-mer) (9 kDa, DNA from Deltaproteobacteria bacterium)
- Dna (24-mer) (7 kDa, DNA from Deltaproteobacteria bacterium)
- Casx (113 kDa, Protein from Deltaproteobacteria bacterium)
- Rna (122-mer) (39 kDa, RNA from Deltaproteobacteria bacterium)
- Casx ternary complex with 30bp target dna (Complex from Deltaproteobacteria)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 6ny2
Q-score: 0.472
Liu JJ, Orlova N, Oakes BL, Ma E, Spinner HB, Baney KLM, Chuck J, Tan D, Knott GJ, Harrington LB, Al-Shayeb B, Wagner A, Brotzmann J, Staahl BT, Taylor KL, Desmarais J, Nogales E, Doudna JA
Nature (2019) 566 pp. 218-223 [ Pubmed: 30718774 DOI: doi:10.1038/s41586-019-0908-x ]
- Casx-grna-dna(45bp) state i (Complex from Deltaproteobacteria)
- Dna (35-mer) (10 kDa, DNA from Deltaproteobacteria)
- Dna (35-mer) (10 kDa, DNA from Deltaproteobacteria)
- Casx (113 kDa, Protein from Deltaproteobacteria bacterium RIFCSPLOWO2 12 FULL 43 16)
- Rna (112-mer) (35 kDa, RNA from Deltaproteobacteria)