Bangaru S, Jackson AM, Copps J, Fernandez-Quintero ML, Torres JL, Richey ST, Nogal B, Sewall LM, de la Pena AT, Rehman A, Guebre-Xabier M, Girard B, Das R, Corbett-Helaire KS, Seder RA, Graham BS, Edwards DK, Patel N, Smith G, Ward AB
bioRxiv (2024) [ DOI: doi:10.1101/2024.12.11.628030 Pubmed: 39713412 ]
ApoB 100 beta barrel bound to LDLR beta propeller
Resolution: 4.8 Å
EM Method: Single-particle
Fitted PDBs: 9bd8
Q-score: 0.241
Reimund M, Dearborn AD, Graziano G, Lei H, Ciancone AM, Kumar A, Holewinski R, Neufeld EB, O'Reilly FJ, Remaley AT, Marcotrigiano J
Nature (2024) [ DOI: doi:10.1038/s41586-024-08223-0 Pubmed: 39663455 ]
- Ldlr (Complex from Homo sapiens)
- Legobody fab (Complex from Mus musculus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Low-density lipoprotein receptor (95 kDa, Protein from Homo sapiens)
- Legobody mbp/igg-binding protein a/igg-binding protein g fusion (Complex from Escherichia coli)
- Apob100 (Complex from Homo sapiens)
- Ldl apob100 bound to ldlr (Complex)
- Apolipoprotein b-100 (516 kDa, Protein from Homo sapiens)
Middle Region of Apolipoprotein B 100 bound to Low Density Lipoprotein Receptor
Resolution: 4.18 Å
EM Method: Single-particle
Fitted PDBs: 9bde
Q-score: 0.311
Reimund M, Dearborn AD, Graziano G, Lei H, Ciancone AM, Kumar A, Holewinski R, Neufeld EB, O'Reilly FJ, Remaley AT, Marcotrigiano J
Nature (2024) [ DOI: doi:10.1038/s41586-024-08223-0 Pubmed: 39663455 ]
- Apob100 nanobody 4 (14 kDa, Protein from Camelus bactrianus)
- Legobody 8d3 fab light chain (24 kDa, Protein from Mus musculus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Legobody 8d3 fab heavy chain (25 kDa, Protein from Mus musculus)
- Calcium ion (40 Da, Ligand)
- Low-density lipoprotein receptor (95 kDa, Protein from Homo sapiens)
- Middle of apob100 bound to ldl receptor and legobody (Complex)
- Apolipoprotein b 100 (516 kDa, Protein from Homo sapiens)
- Maltose/maltodextrin-binding periplasmic protein,immunoglobulin g-binding protein a,immunoglobulin g-binding protein g (59 kDa, Protein from Streptococcus sp. 'group G')
Cryo EM map of full length PLC gamma 2 in autoinhibition state
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 8jqh
Q-score: 0.298
Shin YC, Plummer-Medeiros AM, Mungenast A, Choi HW, TenDyke K, Zhu X, Shepard J, Sanders K, Zhuang N, Hu L, Qian D, Song K, Xu C, Wang J, Poda SB, Liao M, Chen Y
Sci Adv (2024) 10 pp. eadn6037-eadn6037 [ Pubmed: 39612343 DOI: doi:10.1126/sciadv.adn6037 ]
- Plcg2 and fgfr1 (147 kDa, Complex from Homo sapiens)
- 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase gamma-2 (148 kDa, Protein from Homo sapiens)
Cryo EM map of full length PLC gamma 2 and FGFR1 Kinase Domain
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 8jqi
Q-score: 0.273
Shin YC, Plummer-Medeiros AM, Mungenast A, Choi HW, TenDyke K, Zhu X, Shepard J, Sanders K, Zhuang N, Hu L, Qian D, Song K, Xu C, Wang J, Poda SB, Liao M, Chen Y
Sci Adv (2024) 10 pp. eadn6037-eadn6037 [ Pubmed: 39612343 DOI: doi:10.1126/sciadv.adn6037 ]
- Fibroblast growth factor receptor 1 (91 kDa, Protein from Homo sapiens)
- Plcg2 and fgfr1 (147 kDa, Complex from Homo sapiens)
- 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase gamma-2 (148 kDa, Protein from Homo sapiens)
Intracellular domain of apo GC-A
Resolution: 4.4 Å
EM Method: Single-particle
Fitted PDBs: 9bco
Q-score: 0.344
Liu S, Payne AM, Wang J, Zhu L, Paknejad N, Eng ET, Liu W, Miao Y, Hite RK, Huang XY
Nat Struct Mol Biol (2024) [ Pubmed: 39543315 DOI: doi:10.1038/s41594-024-01426-z ]
- Atrial natriuretic peptide receptor 1 dimer (Complex from Homo sapiens)
- Atrial natriuretic peptide receptor 1 (116 kDa, Protein from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
Kinase homology domain of apo GC-A
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 9bcp
Q-score: 0.398
Liu S, Payne AM, Wang J, Zhu L, Paknejad N, Eng ET, Liu W, Miao Y, Hite RK, Huang XY
Nat Struct Mol Biol (2024) [ Pubmed: 39543315 DOI: doi:10.1038/s41594-024-01426-z ]
- Atrial natriuretic peptide receptor 1 dimer (Complex from Homo sapiens)
- Atrial natriuretic peptide receptor 1 (116 kDa, Protein from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Water (18 Da, Ligand)
Intracellular domain of GC-A bound to ANP
Resolution: 4.4 Å
EM Method: Single-particle
Fitted PDBs: 9bcs
Q-score: 0.359
Liu S, Payne AM, Wang J, Zhu L, Paknejad N, Eng ET, Liu W, Miao Y, Hite RK, Huang XY
Nat Struct Mol Biol (2024) [ Pubmed: 39543315 DOI: doi:10.1038/s41594-024-01426-z ]
- Atrial natriuretic peptide receptor 1 dimer (Complex from Homo sapiens)
- Atrial natriuretic peptide receptor 1 (116 kDa, Protein from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
10E8-GT10.2 immunogen in complex with human Fab 10E8 and mouse Fab W6-10
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 8sx3
Q-score: 0.378
Schiffner T, Phung I, Ray R, Irimia A, Tian M, Swanson O, Lee JH, Lee CD, Marina-Zarate E, Cho SY, Huang J, Ozorowski G, Skog PD, Serra AM, Rantalainen K, Allen JD, Baboo S, Rodriguez OL, Himansu S, Zhou J, Hurtado J, Flynn CT, McKenney K, Havenar-Daughton C, Saha S, Shields K, Schulze S, Smith ML, Liang CH, Toy L, Pecetta S, Lin YC, Willis JR, Sesterhenn F, Kulp DW, Hu X, Cottrell CA, Zhou X, Ruiz J, Wang X, Nair U, Kirsch KH, Cheng HL, Davis J, Kalyuzhniy O, Liguori A, Diedrich JK, Ngo JT, Lewis V, Phelps N, Tingle RD, Spencer S, Georgeson E, Adachi Y, Kubitz M, Eskandarzadeh S, Elsliger MA, Amara RR, Landais E, Briney B, Burton DR, Carnathan DG, Silvestri G, Watson CT, Yates 3rd JR, Paulson JC, Crispin M, Grigoryan G, Ward AB, Sok D, Alt FW, Wilson IA, Batista FD, Crotty S, Schief WR
Nat Immunol (2024) 25 pp. 1073-1082 [ Pubmed: 38816615 DOI: doi:10.1038/s41590-024-01833-w ]
- 10e8-gt10.2 immunogen (Complex from synthetic construct)
- 10e8-gt10.2 immunogen (21 kDa, Protein from synthetic construct)
- 10e8 fab heavy chain, 10e8 light chain (Complex from Homo sapiens)
- 10e8-gt10.2 immunogen in complex with human fab 10e8 and mouse fab w6-10 (Complex)
- W6-10 mouse fab heavy chain, w6-10 mouse light chain (Complex from Mus musculus)
- 10e8 light chain (22 kDa, Protein from Homo sapiens)
- W6-10 mouse fab heavy chain (23 kDa, Protein from Mus musculus)
- 10e8 fab heavy chain (25 kDa, Protein from Homo sapiens)
- W6-10 mouse light chain (23 kDa, Protein from Mus musculus)
Single particle reconstruction of the human LINE-1 ORF2p without substrate (apo)
Baldwin ET, van Eeuwen T, Hoyos D, Zalevsky A, Tchesnokov EP, Sanchez R, Miller BD, Di Stefano LH, Ruiz FX, Hancock M, Isik E, Mendez-Dorantes C, Walpole T, Nichols C, Wan P, Riento K, Halls-Kass R, Augustin M, Lammens A, Jestel A, Upla P, Xibinaku K, Congreve S, Hennink M, Rogala KB, Schneider AM, Fairman JE, Christensen SM, Desrosiers B, Bisacchi GS, Saunders OL, Hafeez N, Miao W, Kapeller R, Zaller DM, Sali A, Weichenrieder O, Burns KH, Gotte M, Rout MP, Arnold E, Greenbaum BD, Romero DL, LaCava J, Taylor MS
Nature (2024) 626 pp. 194-206 [ DOI: doi:10.1038/s41586-023-06947-z Pubmed: 38096902 ]