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 ]
- Severe acute respiratory syndrome coronavirus 2 omicron ba.5 rbd bound 8-9d fab (22 kDa, Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov2 omicron ba.5 rbd (Complex)
- 8-9d heavy chain (12 kDa, Protein from Homo sapiens)
- 8-9d light chain (11 kDa, Protein from Homo sapiens)
- 8-9d fab (Complex from Homo sapiens)
- Spike protein (21 kDa, Protein 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 ]
- Sars-cov2 omicron ba.5 spike ectodomain (Complex)
- 8-9d heavy chain (12 kDa, Protein from Homo sapiens)
- 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 light chain (11 kDa, Protein from Homo sapiens)
- Spike protein s2' (123 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 8-9d fab variable region (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
An Agonist and PAM-bound Class A GPCR with Gi protein complex structure
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7v68
Q-score: 0.334
Wang J, Wu M, Chen Z, Wu L, Wang T, Cao D, Wang H, Liu S, Xu Y, Li F, Liu J, Chen N, Zhao S, Cheng J, Wang S, Hua T
Nat Commun (2022) 13 pp. 2855-2855 [ DOI: doi:10.1038/s41467-022-30595-y Pubmed: 35606397 ]
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Scfv16 (Complex from Homo sapiens)
- 4-(4,5-dihydro-1,2-oxazol-3-yloxy)-n,n,n-trimethylbut-2-yn-1-aminium (197 Da, Ligand)
- 3-amino-5-chloro-n-cyclopropyl-4-methyl-6-[2-(4-methylpiperazin-1-yl)-2-oxoethoxy]thieno[2,3-b]pyridine-2-carboxamide (437 Da, Ligand)
- Scfv16 (27 kDa, Protein from Homo sapiens)
- Muscarinic acetylcholine receptor m4r (Complex)
- Gi complex (Complex from Homo sapiens)
- Muscarinic acetylcholine receptor m4 (39 kDa, Protein from Homo sapiens)
- M4r_iperoxo_ly2119620_gi complex (Complex from Homo sapiens)
Cryo-EM structure of a class A GPCR-G protein complex
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7v69
Q-score: 0.324
Wang J, Wu M, Chen Z, Wu L, Wang T, Cao D, Wang H, Liu S, Xu Y, Li F, Liu J, Chen N, Zhao S, Cheng J, Wang S, Hua T
Nat Commun (2022) 13 pp. 2855-2855 [ DOI: doi:10.1038/s41467-022-30595-y Pubmed: 35606397 ]
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Scfv16 (Complex from Homo sapiens)
- M4r-iperoxo and gi protein complex (Complex from Homo sapiens)
- M4r-iperoxo (Complex)
- Scfv16 (27 kDa, Protein from Homo sapiens)
- Muscarinic acetylcholine receptor m4 (39 kDa, Protein from Homo sapiens)
- Gi protein (Complex from Homo sapiens)
Cry-EM structure of M4-c110-G protein complex
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7v6a
Q-score: 0.37
Wang J, Wu M, Chen Z, Wu L, Wang T, Cao D, Wang H, Liu S, Xu Y, Li F, Liu J, Chen N, Zhao S, Cheng J, Wang S, Hua T
Nat Commun (2022) 13 pp. 2855-2855 [ DOI: doi:10.1038/s41467-022-30595-y Pubmed: 35606397 ]
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Scfv16 (Complex from Homo sapiens)
- M4r-compound110-gi complex (Complex from Homo sapiens)
- Scfv16 (27 kDa, Protein from Homo sapiens)
- Muscarinic acetylcholine receptor m4r (Complex)
- Gi complex (Complex from Homo sapiens)
- Muscarinic acetylcholine receptor m4 (39 kDa, Protein from Homo sapiens)
- Methyl 4-[4-(3-methyl-2-oxidanylidene-benzimidazol-1-yl)piperidin-1-yl]piperidine-1-carboxylate (372 Da, Ligand)
Resolution: 3.34 Å
EM Method: Single-particle
Fitted PDBs: 7fjo
Q-score: 0.106
Liang Q, Wang Y, Zhang S, Sun J, Sun W, Li J, Liu Y, Li M, Cheng L, Jiang Y, Wang R, Zhang R, Yang Z, Ren Y, Chen P, Gao P, Yan H, Zhang Z, Zhang Q, Shi X, Wang J, Liu W, Wang X, Ying B, Zhao J, Qi H, Zhang L
iScience (2022) 25 pp. 104043-104043 [ Pubmed: 35291264 DOI: doi:10.1016/j.isci.2022.104043 ]
- T6 fab (Complex from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- S protein of south african (b.1.351) sars-cov-2 spike (Complex)
- T6 light chain (24 kDa, Protein from Homo sapiens)
- S protein of south african (b.1.351) sars-cov-2 spike in complex with t6 fab (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- T6 heavy chain (23 kDa, Protein from Homo sapiens)
Cryo-EM structure of SARS-CoV2 RBD-ACE2 complex
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7dqa
Q-score: 0.508
Liu N, Zheng LM, Xu J, Wang J, Hu CX, Lan J, Zhang X, Zhang JC, Xu K, Cheng H, Yang Z, Gao X, Wang XQ, Peng HL, Chen YN, Wang HW
Biophys Rep (2022) 7 pp. 227-238 [ DOI: doi:10.52601/bpr.2021.210007 ]
- Water (18 Da, Ligand)
- Cryo-em structure of sars-cov2 rbd-ace2 complex (95 kDa, Complex from Homo sapiens)
- Ace2 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (21 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov2 rbd (Complex)
- Zinc ion (65 Da, Ligand)
- Chloride ion (35 Da, Ligand)
- Angiotensin-converting enzyme 2 (92 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
S protein of SARS-CoV-2 in complex bound with P36-5D2(state2)
Resolution: 3.65 Å
EM Method: Single-particle
Fitted PDBs: 7fae
Q-score: 0.292
Shan S, Mok CK, Zhang S, Lan J, Li J, Yang Z, Wang R, Cheng L, Fang M, Aw ZQ, Yu J, Zhang Q, Shi X, Zhang T, Zhang Z, Wang J, Wang X, Chu JJH, Zhang L
Front Immunol (2021) 12 pp. 766821-766821 [ DOI: doi:10.3389/fimmu.2021.766821 Pubmed: 34966387 ]
- S protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- S protein of sars-cov-2 in complex bound with p36-5d2 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- P36-5d2 antibody fab (Complex)
- P36-5d2 heavy chain (51 kDa, Protein from Homo sapiens)
- Spike glycoprotein (143 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- P36-5d2 light chain (25 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
S protein of SARS-CoV-2 in complex bound with P36-5D2 (state1)
Resolution: 3.69 Å
EM Method: Single-particle
Fitted PDBs: 7faf
Q-score: 0.258
Shan S, Mok CK, Zhang S, Lan J, Li J, Yang Z, Wang R, Cheng L, Fang M, Aw ZQ, Yu J, Zhang Q, Shi X, Zhang T, Zhang Z, Wang J, Wang X, Chu JJH, Zhang L
Front Immunol (2021) 12 pp. 766821-766821 [ DOI: doi:10.3389/fimmu.2021.766821 Pubmed: 34966387 ]
- S protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- P36-5d2 fab (Complex)
- S protein of sars-cov-2 in complex bound with p36-5d2 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- P36-5d2 heavy chain (51 kDa, Protein from Homo sapiens)
- Spike glycoprotein (143 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- P36-5d2 light chain (25 kDa, Protein from Homo sapiens)
S protein of SARS-CoV-2 in complex bound with FabP5A-1B8
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7d00
Q-score: 0.36
Yan R, Wang R, Ju B, Yu J, Zhang Y, Liu N, Wang J, Zhang Q, Chen P, Zhou B, Li Y, Shen Y, Zhang S, Tian L, Guo Y, Xia L, Zhong X, Cheng L, Ge X, Zhao J, Wang HW, Wang X, Zhang Z, Zhang L, Zhou Q
Cell Res (2021) 31 pp. 517-525 [ DOI: doi:10.1038/s41422-021-00487-9 Pubmed: 33731853 ]
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Igl c4203_light_igkv1-9_igkj4,uncharacterized protein (23 kDa, Protein from Homo sapiens)
- Ig c642_heavy_ighv3-53_ighd1-26_ighj6,chain h of fabp5a-1b8,igh@ protein (48 kDa, Protein from Homo sapiens)
- S protein of sars-cov-2 in complex bound with fabp5a-1b8 (Complex from Homo sapiens)