Spike Trimer of BA.2.86 in complex with one hACE2
Resolution: 3.33 Å
EM Method: Single-particle
Fitted PDBs: 8whs
Q-score: 0.272
Liu P, Yue C, Meng B, Xiao T, Yang S, Liu S, Jian F, Zhu Q, Yu Y, Ren Y, Wang P, Li Y, Wang J, Mao X, Shao F, Wang Y, Gupta RK, Cao Y, Wang X
Natl Sci Rev (2024) 11 pp. nwae206-nwae206 [ DOI: doi:10.1093/nsr/nwae206 Pubmed: 39071099 ]
- Zinc ion (65 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Processed angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Severe acute respiratory syndrome coronavirus 2 (Virus from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (134 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Chloride ion (35 Da, Ligand)
Spike Trimer of BA.2.86 in complex with two hACE2s
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8whu
Q-score: 0.261
Liu P, Yue C, Meng B, Xiao T, Yang S, Liu S, Jian F, Zhu Q, Yu Y, Ren Y, Wang P, Li Y, Wang J, Mao X, Shao F, Wang Y, Gupta RK, Cao Y, Wang X
Natl Sci Rev (2024) 11 pp. nwae206-nwae206 [ DOI: doi:10.1093/nsr/nwae206 Pubmed: 39071099 ]
- Zinc ion (65 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Processed angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Severe acute respiratory syndrome coronavirus 2 (Virus from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (134 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Chloride ion (35 Da, Ligand)
BA.2.86 Spike Trimer in complex with heparan sulfate
Resolution: 3.85 Å
EM Method: Single-particle
Fitted PDBs: 8xur
Q-score: 0.247
Liu P, Yue C, Meng B, Xiao T, Yang S, Liu S, Jian F, Zhu Q, Yu Y, Ren Y, Wang P, Li Y, Wang J, Mao X, Shao F, Wang Y, Gupta RK, Cao Y, Wang X
Natl Sci Rev (2024) 11 pp. nwae206-nwae206 [ DOI: doi:10.1093/nsr/nwae206 Pubmed: 39071099 ]
- 2-o-sulfo-beta-l-altropyranuronic acid (274 Da, Ligand)
- Ba.2.86 spike trimer in complex with heparan sulfate (Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (134 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
JN.1 Spike Trimer in complex with heparan sulfate
Resolution: 3.18 Å
EM Method: Single-particle
Fitted PDBs: 8xus
Q-score: 0.372
Liu P, Yue C, Meng B, Xiao T, Yang S, Liu S, Jian F, Zhu Q, Yu Y, Ren Y, Wang P, Li Y, Wang J, Mao X, Shao F, Wang Y, Gupta RK, Cao Y, Wang X
Natl Sci Rev (2024) 11 pp. nwae206-nwae206 [ DOI: doi:10.1093/nsr/nwae206 Pubmed: 39071099 ]
- 2-o-sulfo-beta-l-altropyranuronic acid (274 Da, Ligand)
- Spike glycoprotein (134 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Jn.1 spike trimer in complex with heparan sulfate (Complex from Severe acute respiratory syndrome coronavirus 2)
XBB.1.5 Spike Trimer in complex with heparan sulfate
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8xut
Q-score: 0.398
Liu P, Yue C, Meng B, Xiao T, Yang S, Liu S, Jian F, Zhu Q, Yu Y, Ren Y, Wang P, Li Y, Wang J, Mao X, Shao F, Wang Y, Gupta RK, Cao Y, Wang X
Natl Sci Rev (2024) 11 pp. nwae206-nwae206 [ DOI: doi:10.1093/nsr/nwae206 Pubmed: 39071099 ]
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Xbb.1.5 spike trimer in complex with heparan sulfate (Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 2-o-sulfo-beta-l-altropyranuronic acid (274 Da, Ligand)
BA.2.86-T356K Spike Trimer in complex with heparan sulfate (Local refinement)
Resolution: 3.69 Å
EM Method: Single-particle
Fitted PDBs: 8xuu
Q-score: 0.329
Liu P, Yue C, Meng B, Xiao T, Yang S, Liu S, Jian F, Zhu Q, Yu Y, Ren Y, Wang P, Li Y, Wang J, Mao X, Shao F, Wang Y, Gupta RK, Cao Y, Wang X
Natl Sci Rev (2024) 11 pp. nwae206-nwae206 [ DOI: doi:10.1093/nsr/nwae206 Pubmed: 39071099 ]
- Ba.2.86-t356k spike trimer in complex with heparan sulfate (local refinement) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (134 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 2-o-sulfo-beta-l-altropyranuronic acid (274 Da, Ligand)
BA.2.86 RBD in complex with hACE2 (local refinement)
Resolution: 3.93 Å
EM Method: Single-particle
Fitted PDBs: 8whz
Q-score: 0.317
Liu P, Yue C, Meng B, Xiao T, Yang S, Liu S, Jian F, Zhu Q, Yu Y, Ren Y, Wang P, Li Y, Wang J, Mao X, Shao F, Wang Y, Gupta RK, Cao Y, Wang X
Natl Sci Rev (2024) 11 pp. nwae206-nwae206 [ DOI: doi:10.1093/nsr/nwae206 Pubmed: 39071099 ]
- Zinc ion (65 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Severe acute respiratory syndrome coronavirus 2 (Virus from Severe acute respiratory syndrome coronavirus 2)
- Processed angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Chloride ion (35 Da, Ligand)
SARS-CoV-2 BA.2.75 S Trimer in complex with ACE2(state1)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7yr2
Q-score: 0.354
Cao Y, Song W, Wang L, Liu P, Yue C, Jian F, Yu Y, Yisimayi A, Wang P, Wang Y, Zhu Q, Deng J, Fu W, Yu L, Zhang N, Wang J, Xiao T, An R, Wang J, Liu L, Yang S, Niu X, Gu Q, Shao F, Hao X, Meng B, Gupta RK, Jin R, Wang Y, Xie XS, Wang X
Cell Host Microbe (2022) 30 pp. 1527- [ Pubmed: 36270286 DOI: doi:10.1016/j.chom.2022.09.018 ]
- Ba.2.75 s trimer in complex with ace2 (Complex from Homo sapiens)
- Ace2 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Zinc ion (65 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Ba.2.75 s trimer (Complex)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Water (18 Da, Ligand)
- Chloride ion (35 Da, Ligand)
SARS-CoV-2 BA.2.75 S Trimer in complex with ACE2(state2)
Resolution: 3.52 Å
EM Method: Single-particle
Fitted PDBs: 7yr3
Q-score: 0.314
Cao Y, Song W, Wang L, Liu P, Yue C, Jian F, Yu Y, Yisimayi A, Wang P, Wang Y, Zhu Q, Deng J, Fu W, Yu L, Zhang N, Wang J, Xiao T, An R, Wang J, Liu L, Yang S, Niu X, Gu Q, Shao F, Hao X, Meng B, Gupta RK, Jin R, Wang Y, Xie XS, Wang X
Cell Host Microbe (2022) 30 pp. 1527- [ Pubmed: 36270286 DOI: doi:10.1016/j.chom.2022.09.018 ]
- Zinc ion (65 Da, Ligand)
- Ba.2.75 spike trimer (Complex from Homo sapiens)
- Ba.2.75 spike trimer in complex with ace2 (state2) (Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Angiotensin-converting enzyme 2 (69 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Ace2 (Complex)
- Chloride ion (35 Da, Ligand)
Cryo-EM structure of EDS1 and SAG101 with ATP-APDR
Resolution: 2.71 Å
EM Method: Single-particle
Fitted PDBs: 7xjp
Q-score: 0.488
Jia A, Huang S, Song W, Wang J, Meng Y, Sun Y, Xu L, Laessle H, Jirschitzka J, Hou J, Zhang T, Yu W, Hessler G, Li E, Ma S, Yu D, Gebauer J, Baumann U, Liu X, Han Z, Chang J, Parker JE, Chai J
Science (2022) 377 pp. eabq8180-eabq8180 [ DOI: doi:10.1126/science.abq8180 Pubmed: 35857644 ]
- Isopropyl alcohol (60 Da, Ligand)
- Protein eds1 (71 kDa, Protein from Arabidopsis)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Adenosine-5-diphosphoribose (559 Da, Ligand)
- Binary complex of eds1 and sag101 with molecule atp-adpr (Complex from Arabidopsis)
- Senescence-associated carboxylesterase 101 (62 kDa, Protein from Arabidopsis)