Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 8ur5
Q-score: 0.429
Ellis D, Dosey A, Boyoglu-Barnum S, Park YJ, Gillespie R, Syeda H, Hutchinson GB, Tsybovsky Y, Murphy M, Pettie D, Matheson N, Chan S, Ueda G, Fallas JA, Carter L, Graham BS, Veesler D, Kanekiyo M, King NP
Cell Rep (2023) 42 pp. 113552-113552 [ Pubmed: 38096058 DOI: doi:10.1016/j.celrep.2023.113552 ]
- I53_dn5 nanoparticle displaying the trimeric ha heads with heptad domain, th-1heptad-i53_dn5 (local refinement of th-1heptad) (Complex)
- Trimer head ha (Complex from synthetic construct)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Trimer head ha,hemagglutinin ha1 chain (44 kDa, Protein from synthetic construct)
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 8ur7
Q-score: 0.403
Ellis D, Dosey A, Boyoglu-Barnum S, Park YJ, Gillespie R, Syeda H, Hutchinson GB, Tsybovsky Y, Murphy M, Pettie D, Matheson N, Chan S, Ueda G, Fallas JA, Carter L, Graham BS, Veesler D, Kanekiyo M, King NP
Cell Rep (2023) 42 pp. 113552-113552 [ Pubmed: 38096058 DOI: doi:10.1016/j.celrep.2023.113552 ]
- I53_dn5 nanoparticle displaying the trimeric ha heads with heptad domain, th-6heptad-i53_dn5 (Complex)
- Trimer head ha,hemagglutinin ha1 chain (48 kDa, Protein from synthetic construct)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Pentamer (Complex from synthetic construct)
- Trimer head ha (Complex from synthetic construct)
Integrin alpha-v beta-8 in complex with minibinder B8_BP_dsulf
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8tcf
Q-score: 0.493
Roy A, Shi L, Chang A, Dong X, Fernandez A, Kraft JC, Li J, Le VQ, Winegar RV, Cherf GM, Slocum D, Poulson PD, Casper GE, Vallecillo-Zuniga ML, Valdoz JC, Miranda MC, Bai H, Kipnis Y, Olshefsky A, Priya T, Carter L, Ravichandran R, Chow CM, Johnson MR, Cheng S, Smith M, Overed-Sayer C, Finch DK, Lowe D, Bera AK, Matute-Bello G, Birkland TP, DiMaio F, Raghu G, Cochran JR, Stewart LJ, Campbell MG, Van Ry PM, Springer T, Baker D
Nat Commun (2023) 14 pp. 5660-5660 [ DOI: doi:10.1038/s41467-023-41272-z Pubmed: 37704610 ]
- Integrin alpha-v heavy chain (48 kDa, Protein from Homo sapiens)
- Minibinder b8_bp_dslf (8 kDa, Protein from synthetic construct)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Ternary complex of integrin heterodimer (alpha-v beta-8) and the de novo minibinder protein b8_bp_dslf (Complex from Homo sapiens)
- Integrin beta-8 (40 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
Integrin alpha-v beta-6 in complex with minibinder B6_BP_dslf
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8tcg
Q-score: 0.422
Roy A, Shi L, Chang A, Dong X, Fernandez A, Kraft JC, Li J, Le VQ, Winegar RV, Cherf GM, Slocum D, Poulson PD, Casper GE, Vallecillo-Zuniga ML, Valdoz JC, Miranda MC, Bai H, Kipnis Y, Olshefsky A, Priya T, Carter L, Ravichandran R, Chow CM, Johnson MR, Cheng S, Smith M, Overed-Sayer C, Finch DK, Lowe D, Bera AK, Matute-Bello G, Birkland TP, DiMaio F, Raghu G, Cochran JR, Stewart LJ, Campbell MG, Van Ry PM, Springer T, Baker D
Nat Commun (2023) 14 pp. 5660-5660 [ DOI: doi:10.1038/s41467-023-41272-z Pubmed: 37704610 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Integrin alpha-v heavy chain (47 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- Minibinder b6_bp_dslf (8 kDa, Protein from synthetic construct)
- Integrin beta-6 (26 kDa, Protein from Homo sapiens)
- Ternary complex of integrin heterodimer (alpha-v beta-6) and the de novo minibinder protein b6_bp_dslf (Complex from Homo sapiens)
- Manganese (ii) ion (54 Da, Ligand)
SARS-CoV-2 spike in complex with AHB2-2GS-SB175 (local refinement of the RBD and AHB2)
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7uhb
Q-score: 0.366
Hunt AC, Case JB, Park YJ, Cao L, Wu K, Walls AC, Liu Z, Bowen JE, Yeh HW, Saini S, Helms L, Zhao YT, Hsiang TY, Starr TN, Goreshnik I, Kozodoy L, Carter L, Ravichandran R, Green LB, Matochko WL, Thomson CA, Vogeli B, Kruger A, VanBlargan LA, Chen RE, Ying B, Bailey AL, Kafai NM, Boyken SE, Ljubetic A, Edman N, Ueda G, Chow CM, Johnson M, Addetia A, Navarro MJ, Panpradist N, Gale Jr M, Freedman BS, Bloom JD, Ruohola-Baker H, Whelan SPJ, Stewart L, Diamond MS, Veesler D, Jewett MC, Baker D
Sci Transl Med (2022) 14 pp. eabn1252-eabn1252 [ DOI: doi:10.1126/scitranslmed.abn1252 Pubmed: 35412328 ]
- Ahb2-2gs-sb175 (Complex from Synthetic construct)
- Multivalent miniprotein inhibitor ahb2-2gs-sb175 (17 kDa, Protein from synthetic construct)
- Sars-cov-2 spike in complex with ahb2-2gs-sb175 (local refinement of the rbd and ahb2) (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus)
- Sars-cov-2 spike (Complex from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 spike in complex with AHB2-2GS-SB175
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7uhc
Q-score: 0.465
Hunt AC, Case JB, Park YJ, Cao L, Wu K, Walls AC, Liu Z, Bowen JE, Yeh HW, Saini S, Helms L, Zhao YT, Hsiang TY, Starr TN, Goreshnik I, Kozodoy L, Carter L, Ravichandran R, Green LB, Matochko WL, Thomson CA, Vogeli B, Kruger A, VanBlargan LA, Chen RE, Ying B, Bailey AL, Kafai NM, Boyken SE, Ljubetic A, Edman N, Ueda G, Chow CM, Johnson M, Addetia A, Navarro MJ, Panpradist N, Gale Jr M, Freedman BS, Bloom JD, Ruohola-Baker H, Whelan SPJ, Stewart L, Diamond MS, Veesler D, Jewett MC, Baker D
Sci Transl Med (2022) 14 pp. eabn1252-eabn1252 [ DOI: doi:10.1126/scitranslmed.abn1252 Pubmed: 35412328 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Multivalent miniprotein inhibitor ahb2-2gs-sb175 (17 kDa, Protein from synthetic construct)
- Sars-cov-2 spike in complex with multivalent minibinder ahb2-2gs-sb175 (Complex from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 hexapro spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Multivalent miniprotein inhibitor ahb2-2gs-sb175 (Complex from Synthetic construct)
SARS-CoV-2 S B.1.617.2 delta variant + S2M11 + S2L20 Global Refinement
Resolution: 2.4 Å
EM Method: Single-particle
Fitted PDBs: 7so9
Q-score: 0.6
McCallum M, Walls AC, Sprouse KR, Bowen JE, Rosen LE, Dang HV, De Marco A, Franko N, Tilles SW, Logue J, Miranda MC, Ahlrichs M, Carter L, Snell G, Pizzuto MS, Chu HY, Van Voorhis WC, Corti D, Veesler D
Science (2021) 374 pp. 1621-1626 [ DOI: doi:10.1126/science.abl8506 Pubmed: 34751595 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- S2l20 fab light chain (11 kDa, Protein from Homo sapiens)
- S2l20 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 s b.1.617.2 delta variant + s2m11 fab + s2l20 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- S2m11 fab light chain (11 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- S2m11 fab heavy chain (13 kDa, Protein from Homo sapiens)
SARS-CoV-2 S NTD B.1.617.2 delta variant + S2L20 Local Refinement
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7soa
Q-score: 0.553
McCallum M, Walls AC, Sprouse KR, Bowen JE, Rosen LE, Dang HV, De Marco A, Franko N, Tilles SW, Logue J, Miranda MC, Ahlrichs M, Carter L, Snell G, Pizzuto MS, Chu HY, Van Voorhis WC, Corti D, Veesler D
Science (2021) 374 pp. 1621-1626 [ DOI: doi:10.1126/science.abl8506 Pubmed: 34751595 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- S2l20 fab light chain (11 kDa, Protein from Homo sapiens)
- S2l20 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Sars-cov-2 s ntd b.1.617.2 delta variant + s2l20 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 S B.1.617.1 kappa variant + S309 + S2L20 Global Refinement
Resolution: 2.4 Å
EM Method: Single-particle
Fitted PDBs: 7sob
Q-score: 0.483
McCallum M, Walls AC, Sprouse KR, Bowen JE, Rosen LE, Dang HV, De Marco A, Franko N, Tilles SW, Logue J, Miranda MC, Ahlrichs M, Carter L, Snell G, Pizzuto MS, Chu HY, Van Voorhis WC, Corti D, Veesler D
Science (2021) 374 pp. 1621-1626 [ DOI: doi:10.1126/science.abl8506 Pubmed: 34751595 ]
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- S309 fab heavy chain (14 kDa, Protein from Homo sapiens)
- Sars-cov-2 s b.1.617.1 kappa variant + s309 fab + s2l20 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- S2l20 fab heavy chain (13 kDa, Protein from Homo sapiens)
- S309 fab light chain (10 kDa, Protein from Homo sapiens)
- S2l20 fab light chain (11 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
SARS-CoV-2 S RBD B.1.617.1 kappa variant S309 Local Refinement
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7soc
Q-score: 0.541
McCallum M, Walls AC, Sprouse KR, Bowen JE, Rosen LE, Dang HV, De Marco A, Franko N, Tilles SW, Logue J, Miranda MC, Ahlrichs M, Carter L, Snell G, Pizzuto MS, Chu HY, Van Voorhis WC, Corti D, Veesler D
Science (2021) 374 pp. 1621-1626 [ DOI: doi:10.1126/science.abl8506 Pubmed: 34751595 ]
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- S309 fab light chain (11 kDa, Protein from Homo sapiens)
- Sars-cov-2 s rbd b.1.617.1 kappa variant + s309 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- S309 fab heavy chain (14 kDa, Protein from Homo sapiens)