Deconvolved phiPA3 PhuN Tetramer, p2
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 8fne
Q-score: 0.267
Nieweglowska ES, Brilot AF, Mendez-Moran M, Kokontis C, Baek M, Li J, Cheng Y, Baker D, Bondy-Denomy J, Agard DA
Nat Commun (2023) 14 pp. 927-927 [ Pubmed: 36807264 DOI: doi:10.1038/s41467-023-36526-9 ]
SARS-CoV-2 Wuhan-hu-1-Spike-RBD bound to linker variant of affinity matured ACE2 mimetic CVD432
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8dv1
Q-score: 0.415
Remesh SG, Merz GE, Brilot AF, Chio US, Rizo AN, Pospiech Jr TH, Lui I, Laurie MT, Glasgow J, Le CQ, Zhang Y, Diwanji D, Hernandez E, Lopez J, Mehmood H, Pawar KI, Pourmal S, Smith AM, Zhou F, DeRisi J, Kortemme T, Rosenberg OS, Glasgow A, Leung KK, Wells JA, Verba KA
Structure (2023) 31 pp. 253- [ DOI: doi:10.1016/j.str.2023.01.009 Pubmed: 36805129 ]
- Angiotensin-converting enzyme 2,immunoglobulin gamma-1 heavy chain fusion (Complex from Homo sapiens)
- Spike glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 wuhan-hu-1-spike bound to linker variant of affinity matured ace2 mimetic cvd432 (Complex)
- Spike glycoprotein (133 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Angiotensin-converting enzyme 2,immunoglobulin gamma-1 heavy chain fusion,immunoglobulin gamma-1 heavy chain (110 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
SARS-CoV-2 Wuhan-hu-1-Spike-RBD bound to computationally engineered ACE2 mimetic CVD293
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8dv2
Q-score: 0.394
Remesh SG, Merz GE, Brilot AF, Chio US, Rizo AN, Pospiech Jr TH, Lui I, Laurie MT, Glasgow J, Le CQ, Zhang Y, Diwanji D, Hernandez E, Lopez J, Mehmood H, Pawar KI, Pourmal S, Smith AM, Zhou F, DeRisi J, Kortemme T, Rosenberg OS, Glasgow A, Leung KK, Wells JA, Verba KA
Structure (2023) 31 pp. 253- [ DOI: doi:10.1016/j.str.2023.01.009 Pubmed: 36805129 ]
- Spike glycoprotein (Complex from Homo sapiens)
- Angiotensin-converting enzyme 2,immunoglobulin gamma-1 heavy chain fusion (113 kDa, Protein from Homo sapiens)
- Angiotensin-converting enzyme 2,immunoglobulin gamma-1 heavy chain fusion (Complex)
- Spike glycoprotein (133 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sars-cov-2 wuhan-hu-1-spike bound to linker variant of affinity matured ace2 mimetic cvd293 (Complex from Severe acute respiratory syndrome coronavirus 2)
Engineered disulfide cross-linked closed conformation of the Yeast gamma-TuRC(SS)
Resolution: 3.0 Å
EM Method: Helical reconstruction
Fitted PDBs: 7m2w
Q-score: 0.435
Brilot AF, Lyon AS, Zelter A, Viswanath S, Maxwell A, MacCoss MJ, Muller EG, Sali A, Davis TN, Agard DA
eLife (2021) 10 [ DOI: doi:10.7554/eLife.65168 Pubmed: 33949948 ]
- Engineered disulfide cross-linked closed conformation of the yeast gamma-turc(ss) (Complex from Saccharomyces cerevisiae)
- Spindle pole body component spc98 (98 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Spindle pole body component spc97 (96 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Tubulin gamma chain (52 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Spindle pole body component 110 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Open conformation of the Yeast wild-type gamma-TuRC
Resolution: 3.6 Å
EM Method: Helical reconstruction
Fitted PDBs: 7m2x
Q-score: 0.295
Brilot AF, Lyon AS, Zelter A, Viswanath S, Maxwell A, MacCoss MJ, Muller EG, Sali A, Davis TN, Agard DA
eLife (2021) 10 [ DOI: doi:10.7554/eLife.65168 Pubmed: 33949948 ]
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Spindle pole body component spc98 (98 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Spindle pole body component spc97 (96 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Tubulin gamma chain (52 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Open conformation of the yeast wild-type gamma-turc (Complex from Saccharomyces cerevisiae)
- Spindle pole body component 110 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Closed conformation of the Yeast wild-type gamma-TuRC
Resolution: 4.03 Å
EM Method: Helical reconstruction
Fitted PDBs: 7m2y
Q-score: 0.249
Brilot AF, Lyon AS, Zelter A, Viswanath S, Maxwell A, MacCoss MJ, Muller EG, Sali A, Davis TN, Agard DA
eLife (2021) 10 [ DOI: doi:10.7554/eLife.65168 Pubmed: 33949948 ]
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Spindle pole body component spc98 (98 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Spindle pole body component spc97 (96 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Tubulin gamma chain (52 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Closed conformation of the yeast wild-type gamma-turc (Complex from Saccharomyces cerevisiae)
- Spindle pole body component 110 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Monomeric single-particle reconstruction of the Yeast gamma-TuSC
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7m2z
Q-score: 0.314
Brilot AF, Lyon AS, Zelter A, Viswanath S, Maxwell A, MacCoss MJ, Muller EG, Sali A, Davis TN, Agard DA
eLife (2021) 10 [ DOI: doi:10.7554/eLife.65168 Pubmed: 33949948 ]
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Spindle pole body component spc98 (98 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Spindle pole body component spc97 (96 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Tubulin gamma chain (52 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Monomer of the yeast gamma-tusc (300 kDa, Complex from Saccharomyces cerevisiae)
SARS-CoV-2 Spike bound to Nb6 in closed conformation
Resolution: 3.03 Å
EM Method: Single-particle
Fitted PDBs: 7kkk
Q-score: 0.463
Schoof M, Faust B, Saunders RA, Sangwan S, Rezelj V, Hoppe N, Boone M, Billesbolle CB, Puchades C, Azumaya CM, Kratochvil HT, Zimanyi M, Deshpande I, Liang J, Dickinson S, Nguyen HC, Chio CM, Merz GE, Thompson MC, Diwanji D, Schaefer K, Anand AA, Dobzinski N, Zha BS, Simoneau CR, Leon K, White KM, Chio US, Gupta M, Jin M, Li F, Liu Y, Zhang K, Bulkley D, Sun M, Smith AM, Rizo AN, Moss F, Brilot AF, Pourmal S, Trenker R, Pospiech T, Gupta S, Barsi-Rhyne B, Belyy V, Barile-Hill AW, Nock S, Liu Y, Krogan NJ, Ralston CY, Swaney DL, Garcia-Sastre A, Ott M, Vignuzzi M, QCRG Structural Biology Consortium, Walter P, Manglik A
Science (2020) 370 pp. 1473-1479 [ Pubmed: 33154106 DOI: doi:10.1126/science.abe3255 ]
- Synthetic nanobody nb6 (12 kDa, Protein from synthetic construct)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Synthetic nanobody nb6 (Complex from synthetic construct)
- Complex of spike s2p glycoprotein with synthetic nanobody nb6 (Complex)
- Spike s2p glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 Spike bound to mNb6 in closed conformation
Resolution: 2.85 Å
EM Method: Single-particle
Fitted PDBs: 7kkl
Q-score: 0.514
Schoof M, Faust B, Saunders RA, Sangwan S, Rezelj V, Hoppe N, Boone M, Billesbolle CB, Puchades C, Azumaya CM, Kratochvil HT, Zimanyi M, Deshpande I, Liang J, Dickinson S, Nguyen HC, Chio CM, Merz GE, Thompson MC, Diwanji D, Schaefer K, Anand AA, Dobzinski N, Zha BS, Simoneau CR, Leon K, White KM, Chio US, Gupta M, Jin M, Li F, Liu Y, Zhang K, Bulkley D, Sun M, Smith AM, Rizo AN, Moss F, Brilot AF, Pourmal S, Trenker R, Pospiech T, Gupta S, Barsi-Rhyne B, Belyy V, Barile-Hill AW, Nock S, Liu Y, Krogan NJ, Ralston CY, Swaney DL, Garcia-Sastre A, Ott M, Vignuzzi M, QCRG Structural Biology Consortium, Walter P, Manglik A
Science (2020) 370 pp. 1473-1479 [ Pubmed: 33154106 DOI: doi:10.1126/science.abe3255 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Synthetic nanobody mnb6 (13 kDa, Protein from synthetic construct)
- Complex of spike s2p glycoprotein with synthetic nanobody mnb6 (Complex)
- Synthetic nanobody mnb6 (Complex from synthetic construct)
- Spike s2p glycoprotein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
Human Tom70 in complex with SARS CoV2 Orf9b
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 7kdt
Q-score: 0.473
Gordon DE, Hiatt J, Bouhaddou M, Rezelj VV, Ulferts S, Braberg H, Jureka AS, Obernier K, Guo JZ, Batra J, Kaake RM, Weckstein AR, Owens TW, Gupta M, Pourmal S, Titus EW, Cakir M, Soucheray M, McGregor M, Cakir Z, Jang G, O'Meara MJ, Tummino TA, Zhang Z, Foussard H, Rojc A, Zhou Y, Kuchenov D, Huttenhain R, Xu J, Eckhardt M, Swaney DL, Fabius JM, Ummadi M, Tutuncuoglu B, Rathore U, Modak M, Haas P, Haas KM, Naing ZZC, Pulido EH, Shi Y, Barrio-Hernandez I, Memon D, Petsalaki E, Dunham A, Marrero MC, Burke D, Koh C, Vallet T, Silvas JA, Azumaya CM, Billesbolle C, Brilot AF, Campbell MG, Diallo A, Dickinson MS, Diwanji D, Herrera N, Hoppe N, Kratochvil HT, Liu Y, Merz GE, Moritz M, Nguyen HC, Nowotny C, Puchades C, Rizo AN, Schulze-Gahmen U, Smith AM, Sun M, Young ID, Zhao J, Asarnow D, Biel J, Bowen A, Braxton JR, Chen J, Chio CM, Chio US, Deshpande I, Doan L, Faust B, Flores S, Jin M, Kim K, Lam VL, Li F, Li J, Li YL, Li Y, Liu X, Lo M, Lopez KE, Melo AA, Moss 3rd FR, Nguyen P, Paulino J, Pawar KI, Peters JK, Pospiech Jr TH, Safari M, Sangwan S, Schaefer K, Thomas PV, Thwin AC, Trenker R, Tse E, Tsui TKM, Wang F, Whitis N, Yu Z, Zhang K, Zhang Y, Zhou F, Saltzberg D, Hodder AJ, Shun-Shion AS, Williams DM, White KM, Rosales R, Kehrer T, Miorin L, Moreno E, Patel AH, Rihn S, Khalid MM, Vallejo-Gracia A, Fozouni P, Simoneau CR, Roth TL, Wu D, Karim MA, Ghoussaini M, Dunham I, Berardi F, Weigang S, Chazal M, Park J, Logue J, McGrath M, Weston S, Haupt R, Hastie CJ, Elliott M, Brown F, Burness KA, Reid E, Dorward M, Johnson C, Wilkinson SG, Geyer A, Giesel DM, Baillie C, Raggett S, Leech H, Toth R, Goodman N, Keough KC, Lind AL, Klesh RJ, Hemphill KR, Carlson-Stevermer J, Oki J, Holden K, Maures T, Pollard KS, Sali A, Agard DA, Cheng Y, Fraser JS, Frost A, Jura N, Kortemme T, Manglik A, Southworth DR, Stroud RM, Alessi DR, Davies P, Frieman MB, Ideker T, Abate C, Jouvenet N, Kochs G, Shoichet B, Ott M, Palmarini M, Shokat KM, Garcia-Sastre A, Rassen JA, Grosse R, Rosenberg OS, Verba KA, Basler CF, Vignuzzi M, Peden AA, Beltrao P, Krogan NJ
Science (2020) 370 [ DOI: doi:10.1126/science.abe9403 Pubmed: 33060197 ]
- Orf9b-tom70 complex (Complex from Homo sapiens)
- Mitochondrial import receptor subunit tom70 (56 kDa, Protein from Homo sapiens)
- Orf9b protein (10 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)