Cryo-EM structure of SNAP-94847-bound MCHR1, S1 state
Resolution: 3.33 Å
EM Method: Single-particle
Fitted PDBs: 8yns
Q-score: 0.476
Ye X, Liu G, Li X, He B, Tao Y, Guan J, Mu Y, Liu H, Gong W
Cell Discov (2024) 10 pp. 124-124 [ DOI: doi:10.1038/s41421-024-00754-0 Pubmed: 39616153 ]
- Antibody 1b3 fab light chain (23 kDa, Protein from synthetic construct)
- Snap-94847-mchr1-fab1b3-glue complex (Complex from Homo sapiens)
- Melanin-concentrating hormone receptor 1,soluble cytochrome b562 (64 kDa, Protein from Homo sapiens)
- Glue molecule 4-9 (30 kDa, Protein from synthetic construct)
- Antibody 1b3 fab heavy chain (25 kDa, Protein from synthetic construct)
- ~{n}-[3-[1-[[4-[3,4-bis(fluoranyl)phenoxy]phenyl]methyl]piperidin-4-yl]-4-methyl-phenyl]-2-methyl-propanamide (478 Da, Ligand)
Cryo-EM structure of SNAP-94847-bound MCHR1, S2 state
Resolution: 3.43 Å
EM Method: Single-particle
Fitted PDBs: 8ynt
Q-score: 0.422
Ye X, Liu G, Li X, He B, Tao Y, Guan J, Mu Y, Liu H, Gong W
Cell Discov (2024) 10 pp. 124-124 [ DOI: doi:10.1038/s41421-024-00754-0 Pubmed: 39616153 ]
- Antibody 1b3 fab light chain (23 kDa, Protein from synthetic construct)
- Snap-94847-mchr1-fab1b3-glue complex (Complex from Homo sapiens)
- Melanin-concentrating hormone receptor 1,soluble cytochrome b562 (64 kDa, Protein from Homo sapiens)
- Glue molecule 4-9 (30 kDa, Protein from synthetic construct)
- Antibody 1b3 fab heavy chain (25 kDa, Protein from synthetic construct)
- ~{n}-[3-[1-[[4-[3,4-bis(fluoranyl)phenoxy]phenyl]methyl]piperidin-4-yl]-4-methyl-phenyl]-2-methyl-propanamide (478 Da, Ligand)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 9asd
Q-score: 0.506
Rosen LE, Tortorici MA, De Marco A, Pinto D, Foreman WB, Taylor AL, Park YJ, Bohan D, Rietz T, Errico JM, Hauser K, Dang HV, Chartron JW, Giurdanella M, Cusumano G, Saliba C, Zatta F, Sprouse KR, Addetia A, Zepeda SK, Brown J, Lee J, Dellota Jr E, Rajesh A, Noack J, Tao Q, DaCosta Y, Tsu B, Acosta R, Subramanian S, de Melo GD, Kergoat L, Zhang I, Liu Z, Guarino B, Schmid MA, Schnell G, Miller JL, Lempp FA, Czudnochowski N, Cameroni E, Whelan SPJ, Bourhy H, Purcell LA, Benigni F, di Iulio J, Pizzuto MS, Lanzavecchia A, Telenti A, Snell G, Corti D, Veesler D, Starr TN
Cell (2024) 187 pp. 7196- [ DOI: doi:10.1016/j.cell.2024.09.026 Pubmed: 39383863 ]
- Vir-7229 fab light chain (11 kDa, Protein from Homo sapiens)
- Spike glycoprotein (141 kDa, Protein from Homo sapiens)
- Vir-7229 fab heavy chain (13 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Ba 2.86 rbd - s2v29 complex (local refinement) (Complex from Sarbecovirus)
VIR-7229 Fab fragment bound the BA.2.86 spike trimer (global refinement)
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 9au2
Q-score: 0.499
Rosen LE, Tortorici MA, De Marco A, Pinto D, Foreman WB, Taylor AL, Park YJ, Bohan D, Rietz T, Errico JM, Hauser K, Dang HV, Chartron JW, Giurdanella M, Cusumano G, Saliba C, Zatta F, Sprouse KR, Addetia A, Zepeda SK, Brown J, Lee J, Dellota Jr E, Rajesh A, Noack J, Tao Q, DaCosta Y, Tsu B, Acosta R, Subramanian S, de Melo GD, Kergoat L, Zhang I, Liu Z, Guarino B, Schmid MA, Schnell G, Miller JL, Lempp FA, Czudnochowski N, Cameroni E, Whelan SPJ, Bourhy H, Purcell LA, Benigni F, di Iulio J, Pizzuto MS, Lanzavecchia A, Telenti A, Snell G, Corti D, Veesler D, Starr TN
Cell (2024) 187 pp. 7196- [ DOI: doi:10.1016/j.cell.2024.09.026 Pubmed: 39383863 ]
- Vir-7229 fab light chain (23 kDa, Protein from Homo sapiens)
- Vir-7229 fab heavy chain (24 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (141 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Ba.2.86 spike glycoprotein in complex with vir-7229 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
DH270.6 Fab bound to the HIV-1 CH848 DE3 SOSIP
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8vgv
Q-score: 0.453
Henderson R, Anasti K, Manne K, Stalls V, Saunders C, Bililign Y, Williams A, Bubphamala P, Montani M, Kachhap S, Li J, Jaing C, Newman A, Cain DW, Lu X, Venkatayogi S, Berry M, Wagh K, Korber B, Saunders KO, Tian M, Alt F, Wiehe K, Acharya P, Alam SM, Haynes BF
Nat Commun (2024) 15 pp. 9503-9503 [ Pubmed: 39489734 DOI: doi:10.1038/s41467-024-53120-9 ]
- Ch848 de3 sosip gp120 (51 kDa, Protein from Human immunodeficiency virus 1)
- Ch848 de3 sosip gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Dh270.6 antibody fab light chain (11 kDa, Protein from Homo sapiens)
- Antibody fab bound hiv-1 ectodomain (Complex from Human immunodeficiency virus 1)
- Dh270.6 antibody fab heavy chain (14 kDa, Protein from Homo sapiens)
VRC01 Fab bound to the HIV-1 CH848 DE3 SOSIP
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 8vgw
Q-score: 0.426
Henderson R, Anasti K, Manne K, Stalls V, Saunders C, Bililign Y, Williams A, Bubphamala P, Montani M, Kachhap S, Li J, Jaing C, Newman A, Cain DW, Lu X, Venkatayogi S, Berry M, Wagh K, Korber B, Saunders KO, Tian M, Alt F, Wiehe K, Acharya P, Alam SM, Haynes BF
Nat Commun (2024) 15 pp. 9503-9503 [ Pubmed: 39489734 DOI: doi:10.1038/s41467-024-53120-9 ]
- Ch848 de3 sosip gp120 (52 kDa, Protein from Human immunodeficiency virus 1)
- Vrc01 fab heavy chain (13 kDa, Protein from Homo sapiens)
- Ch848 de3 sosip gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Vrc01 fab light chain (11 kDa, Protein from Homo sapiens)
- Antibody fab bound hiv-1 ectodomain (Complex from Human immunodeficiency virus 1)
CH235.12 Fab bound to the HIV-1 CH505.M5 SOSIP
Resolution: 4.08 Å
EM Method: Single-particle
Fitted PDBs: 8vh1
Q-score: 0.404
Henderson R, Anasti K, Manne K, Stalls V, Saunders C, Bililign Y, Williams A, Bubphamala P, Montani M, Kachhap S, Li J, Jaing C, Newman A, Cain DW, Lu X, Venkatayogi S, Berry M, Wagh K, Korber B, Saunders KO, Tian M, Alt F, Wiehe K, Acharya P, Alam SM, Haynes BF
Nat Commun (2024) 15 pp. 9503-9503 [ Pubmed: 39489734 DOI: doi:10.1038/s41467-024-53120-9 ]
- Antibody fab bound hiv-1 ectodomain (Complex from Human immunodeficiency virus 1)
- Ch235.i60 fab light chain (23 kDa, Protein from Homo sapiens)
- Ch505.m5 sosip gp120 (52 kDa, Protein from Human immunodeficiency virus 1)
- Ch505.m5 sosip gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Ch235.i60 fab heavy chain (23 kDa, Protein from Homo sapiens)
CH235.12 Fab bound to the HIV-1 CH505.M5 SOSIP
Resolution: 4.31 Å
EM Method: Single-particle
Fitted PDBs: 8vh2
Q-score: 0.32
Henderson R, Anasti K, Manne K, Stalls V, Saunders C, Bililign Y, Williams A, Bubphamala P, Montani M, Kachhap S, Li J, Jaing C, Newman A, Cain DW, Lu X, Venkatayogi S, Berry M, Wagh K, Korber B, Saunders KO, Tian M, Alt F, Wiehe K, Acharya P, Alam SM, Haynes BF
Nat Commun (2024) 15 pp. 9503-9503 [ Pubmed: 39489734 DOI: doi:10.1038/s41467-024-53120-9 ]
- Ch235.12 fab heavy chain (24 kDa, Protein from Homo sapiens)
- Ch235.12 fab light chain (23 kDa, Protein from Homo sapiens)
- Envelope glycoprotein gp160 (18 kDa, Protein from Human immunodeficiency virus 1)
- Antibody fab bound hiv-1 ectodomain (Complex from Human immunodeficiency virus 1)
- Ch505.m5.g458y sosip gp120 (52 kDa, Protein from Human immunodeficiency virus 1)
Engineered peptide-specific binder in complex with HLA-DR1/CLIP
Resolution: 2.28 Å
EM Method: Single-particle
Fitted PDBs: 8vsj
Q-score: 0.528
Du H, Liu J, Jude KM, Yang X, Li Y, Bell B, Yang H, Kassardjian A, Blackson W, Mobedi A, Parekh U, Parra Sperberg RA, Julien JP, Mellins ED, Garcia KC, Huang PS
Nat Biotechnol (2024) [ Pubmed: 39672953 DOI: doi:10.1038/s41587-024-02466-y ]
- Hla class ii histocompatibility antigen, dr alpha chain (21 kDa, Protein from Homo sapiens)
- Engineered peptide-specific binder in complex with hla-dr1/clip (Complex from Homo sapiens)
- Hla class ii histocompatibility antigen dr beta chain (22 kDa, Protein from Homo sapiens)
- C44h10 fab light chain (23 kDa, Protein from Homo sapiens)
- C44h10 fab heavy chain (23 kDa, Protein from Homo sapiens)
- Superantigen (15 kDa, Protein from Metamycoplasma arthritidis)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Class-ii-associated invariant chain peptide (1 kDa, Protein from Homo sapiens)
CRYO-EM STRUCTURE OF HIV-1 BG505DS-SOSIP.664 ENV TRIMER BOUND TO DJ85-b.01 FAB
Wang H, Cheng C, Dal Santo JL, Shen CH, Bylund T, Henry AR, Howe CA, Hwang J, Morano NC, Morris DJ, Pletnev S, Roark RS, Zhou T, Hansen BT, Hoyt FH, Johnston TS, Wang S, Zhang B, Ambrozak DR, Becker JE, Bender MF, Changela A, Chaudhary R, Corcoran M, Corrigan AR, Foulds KE, Guo Y, Lee M, Li Y, Lin BC, Liu T, Louder MK, Mandolesi M, Mason RD, McKee K, Nair V, O'Dell S, Olia AS, Ou L, Pegu A, Raju N, Rawi R, Roberts-Torres J, Sarfo EK, Sastry M, Schaub AJ, Schmidt SD, Schramm CA, Schwartz CL, Smith SC, Stephens T, Stuckey J, Teng IT, Todd JP, Tsybovsky Y, Van Wazer DJ, Wang S, Doria-Rose NA, Fischer ER, Georgiev IS, Karlsson Hedestam GB, Sheng Z, Woodward RA, Douek DC, Koup RA, Pierson TC, Shapiro L, Shaw GM, Mascola JR, Kwong PD
Cell (2024) 187 pp. 7214-7231.e23 [ Pubmed: 39471811 DOI: doi:10.1016/j.cell.2024.10.003 ]
- Bg505 ds-sosip transmembrane protein gp41 (17 kDa, Protein from Human immunodeficiency virus 1)
- Dj85-b.01 fab (Complex from Homo sapiens)
- Dj85-b.01 fab light chain (23 kDa, Protein from Homo sapiens)
- Dj85-b.01 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Bg505 ds-sosip dj85-b.01 fab complex (Complex)
- Bg505 ds-sosip surface protein gp120 (54 kDa, Protein from Human immunodeficiency virus 1)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Bg505 ds-sosip (Complex from Human immunodeficiency virus 1)