Structure of the phosphorylation-site double mutant S431A/T432A of the KaiC circadian clock protein
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7x1y
Q-score: 0.54
Han X, Zhang D, Hong L, Yu D, Wu Z, Yang T, Rust M, Tu Y, Ouyang Q
Nat Commun (2023) 14 pp. 5907- [ DOI: doi:10.1038/s41467-023-41575-1 ]
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Circadian clock oscillator protein kaic (52 kDa, Protein from Synechococcus elongatus PCC 7942 = FACHB-805)
- Kaic hexamer (Complex from Synechococcus elongatus PCC 7942 = FACHB-805)
- Magnesium ion (24 Da, Ligand)
SARS-CoV-2 Spike trimer in complex with RmAb 9H1 Fab in the class 1 conformation
Resolution: 3.53 Å
EM Method: Single-particle
Fitted PDBs: 8heb
Q-score: 0.379
Chu X, Ding X, Yang Y, Lu Y, Li T, Gao Y, Zheng L, Xiao H, Yang T, Cheng H, Huang H, Liu Y, Lou Y, Wu C, Chen Y, Yang H, Ji X, Guo H
Biochem Biophys Res Commun (2023) 660 pp. 43-49 [ Pubmed: 37062240 DOI: doi:10.1016/j.bbrc.2023.04.002 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (133 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Rabbit antibody 9h1 heavy chain (12 kDa, Protein from Oryctolagus cuniculus)
- Rabbit antibody 9h1 light chain (11 kDa, Protein from Oryctolagus cuniculus)
- 9h1 fab (Complex)
- Sars-cov-2 wt spike glycoprotein complex with rmab 9h1 fabs (Complex from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 Spike trimer in complex with RmAb 9H1 Fab in the class 2 conformation
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8hec
Q-score: 0.358
Chu X, Ding X, Yang Y, Lu Y, Li T, Gao Y, Zheng L, Xiao H, Yang T, Cheng H, Huang H, Liu Y, Lou Y, Wu C, Chen Y, Yang H, Ji X, Guo H
Biochem Biophys Res Commun (2023) 660 pp. 43-49 [ Pubmed: 37062240 DOI: doi:10.1016/j.bbrc.2023.04.002 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 9h1 fab (Complex)
- Spike glycoprotein (133 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Rabbit antibody 9h1 heavy chain (12 kDa, Protein from Oryctolagus cuniculus)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Rabbit antibody 9h1 light chain (11 kDa, Protein from Oryctolagus cuniculus)
- Sars-cov-2 wt spike glycoprotein complex with rmab 9h1 fabs (Complex from Severe acute respiratory syndrome coronavirus 2)
Local refinement of the SARS-CoV-2 Spike trimer in complex with RmAb 9H1 Fab
Resolution: 3.59 Å
EM Method: Single-particle
Fitted PDBs: 8hed
Q-score: 0.469
Chu X, Ding X, Yang Y, Lu Y, Li T, Gao Y, Zheng L, Xiao H, Yang T, Cheng H, Huang H, Liu Y, Lou Y, Wu C, Chen Y, Yang H, Ji X, Guo H
Biochem Biophys Res Commun (2023) 660 pp. 43-49 [ Pubmed: 37062240 DOI: doi:10.1016/j.bbrc.2023.04.002 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 9h1 fab (Complex)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Rabbit antibody 9h1 heavy chain (12 kDa, Protein from Oryctolagus cuniculus)
- Sars-cov-2 spike glycoprotein rbd (Complex from Oryctolagus cuniculus)
- Rabbit antibody 9h1 light chain (11 kDa, Protein from Oryctolagus cuniculus)
- Sars-cov-2 wt spike glycoprotein rbd complex with 9h1 fabs (Complex from Severe acute respiratory syndrome coronavirus 2)
Structure of the phosphorylation-site double mutant S431E/T432E of the KaiC circadian clock protein
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7x1z
Q-score: 0.5
Han X, Zhang D, Hong L, Yu D, Wu Z, Yang T, Rust M, Tu Y, Ouyang Q
Nat Commun (2023) 14 pp. 5907- [ DOI: doi:10.1038/s41467-023-41575-1 ]
- Magnesium ion (24 Da, Ligand)
- Kaic hexamer (Complex from Synechococcus elongatus PCC 7942 = FACHB-805)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Circadian clock oscillator protein kaic (54 kDa, Protein from Synechococcus elongatus)
Structure of the Spring Viraemia of Carp Virus ribonucleoprotein Complex
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7yg7
Q-score: 0.473
Wang ZX, Liu B, Yang T, Yu D, Zhang C, Zheng L, Xie J, Liu B, Liu M, Peng H, Lai L, Ouyang Q, Ouyang S, Zhang YA
J Virol (2023) 97 pp. e0182922-e0182922 [ Pubmed: 36943056 DOI: doi:10.1128/jvi.01829-22 ]
- Rna (99-mer) (30 kDa, RNA from Trichoplusia ni)
- Nucleoprotein (Complex from Trichoplusia ni)
- Ribonucleoprotein complex of the spring viraemia carp virus (Complex from Sprivirus cyprinus)
- Rna (Complex)
- Nucleoprotein (46 kDa, Protein from Sprivivirus cyprinus)
cryoEM structure of bovine bestrophin-2 and glutamine synthetase complex
Resolution: 2.0 Å
EM Method: Single-particle
Fitted PDBs: 8ecy
Q-score: 0.7
Owji AP, Yu K, Kittredge A, Wang J, Zhang Y, Yang T
Nature (2022) 611 pp. 180-187 [ DOI: doi:10.1038/s41586-022-05373-x Pubmed: 36289327 ]
- Best2-gs (Complex from Homo sapiens)
- Glutamine synthetase (42 kDa, Protein from Bos taurus)
- Water (18 Da, Ligand)
- Manganese (ii) ion (54 Da, Ligand)
- Chloride ion (35 Da, Ligand)
- Bestrophin (47 kDa, Protein from Bos taurus)
- Calcium ion (40 Da, Ligand)
hBest2 1uM Ca2+ (Ca2+-bound) closed state
Resolution: 1.78 Å
EM Method: Single-particle
Fitted PDBs: 8d1e
Q-score: 0.789
Owji AP, Wang J, Kittredge A, Clark Z, Zhang Y, Hendrickson WA, Yang T
Nat Commun (2022) 13 pp. 3836-3836 [ DOI: doi:10.1038/s41467-022-31437-7 Pubmed: 35789156 ]
- Bestrophin-2 (46 kDa, Protein from Homo sapiens)
- Hbest2 1um ca2+ (ca2+-bound) closed state (234 kDa, Complex from Homo sapiens)
- 1,2-dimyristoyl-rac-glycero-3-phosphocholine (677 Da, Ligand)
- 2-[2-[(1~{s},2~{s},4~{s},5'~{r},6~{r},7~{s},8~{r},9~{s},12~{s},13~{r},16~{s})-5',7,9,13-tetramethylspiro[5-oxapentacyclo[10.8.0.0^{2,9}.0^{4,8}.0^{13,18}]icos-18-ene-6,2'-oxane]-16-yl]oxyethyl]propane-1,3-diol (516 Da, Ligand)
- Chloride ion (35 Da, Ligand)
- Water (18 Da, Ligand)
- Calcium ion (40 Da, Ligand)
hBest2 5mM Ca2+ (Ca2+-bound) closed state
Resolution: 1.82 Å
EM Method: Single-particle
Fitted PDBs: 8d1f
Q-score: 0.787
Owji AP, Wang J, Kittredge A, Clark Z, Zhang Y, Hendrickson WA, Yang T
Nat Commun (2022) 13 pp. 3836-3836 [ DOI: doi:10.1038/s41467-022-31437-7 Pubmed: 35789156 ]
- Bestrophin-2 (46 kDa, Protein from Homo sapiens)
- Chloride ion (35 Da, Ligand)
- 2-[2-[(1~{s},2~{s},4~{s},5'~{r},6~{r},7~{s},8~{r},9~{s},12~{s},13~{r},16~{s})-5',7,9,13-tetramethylspiro[5-oxapentacyclo[10.8.0.0^{2,9}.0^{4,8}.0^{13,18}]icos-18-ene-6,2'-oxane]-16-yl]oxyethyl]propane-1,3-diol (516 Da, Ligand)
- Water (18 Da, Ligand)
- 1,2-dimyristoyl-rac-glycero-3-phosphocholine (677 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Hbest2 5mm ca2+ (ca2+-bound) closed state (234 kDa, Complex from Homo sapiens)
Resolution: 2.07 Å
EM Method: Single-particle
Fitted PDBs: 8d1g
Q-score: 0.703
Owji AP, Wang J, Kittredge A, Clark Z, Zhang Y, Hendrickson WA, Yang T
Nat Commun (2022) 13 pp. 3836-3836 [ DOI: doi:10.1038/s41467-022-31437-7 Pubmed: 35789156 ]
- Bestrophin-2 (46 kDa, Protein from Homo sapiens)
- 2-[2-[(1~{s},2~{s},4~{s},5'~{r},6~{r},7~{s},8~{r},9~{s},12~{s},13~{r},16~{s})-5',7,9,13-tetramethylspiro[5-oxapentacyclo[10.8.0.0^{2,9}.0^{4,8}.0^{13,18}]icos-18-ene-6,2'-oxane]-16-yl]oxyethyl]propane-1,3-diol (516 Da, Ligand)
- 1,2-dimyristoyl-rac-glycero-3-phosphocholine (677 Da, Ligand)
- Chloride ion (35 Da, Ligand)
- Water (18 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Hbest2 ca2+-bound open state (234 kDa, Complex from Homo sapiens)