Cryo-EM structure of synthetic tetrameric building block sC4
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 8gel
Q-score: 0.439
Huddy TF, Hsia Y, Kibler RD, Xu J, Bethel N, Nagarajan D, Redler R, Leung PJY, Weidle C, Courbet A, Yang EC, Bera AK, Coudray N, Calise SJ, Davila-Hernandez FA, Han HL, Carr KD, Li Z, McHugh R, Reggiano G, Kang A, Sankaran B, Dickinson MS, Coventry B, Brunette TJ, Liu Y, Dauparas J, Borst AJ, Ekiert D, Kollman JM, Bhabha G, Baker D
Nature (2024) 627 pp. 898-904 [ Pubmed: 38480887 DOI: doi:10.1038/s41586-024-07188-4 ]
- Sc4 (57 kDa, Protein from synthetic construct)
- De novo designed tetramer sc4 (Complex from synthetic construct)
CryoEM Structure of a Computationally Designed T3 Tetrahedral Nanocage
Resolution: 4.05 Å
EM Method: Single-particle
Fitted PDBs: 8tl7
Q-score: 0.338
Huddy TF, Hsia Y, Kibler RD, Xu J, Bethel N, Nagarajan D, Redler R, Leung PJY, Weidle C, Courbet A, Yang EC, Bera AK, Coudray N, Calise SJ, Davila-Hernandez FA, Han HL, Carr KD, Li Z, McHugh R, Reggiano G, Kang A, Sankaran B, Dickinson MS, Coventry B, Brunette TJ, Liu Y, Dauparas J, Borst AJ, Ekiert D, Kollman JM, Bhabha G, Baker D
Nature (2024) 627 pp. 898-904 [ Pubmed: 38480887 DOI: doi:10.1038/s41586-024-07188-4 ]
- T3 tetrahedral cage (Complex from unidentified)
- Computationally designed protein (78 kDa, Protein from synthetic construct)
Computational Designed Nanocage O43_129
Resolution: 6.77 Å
EM Method: Single-particle
Fitted PDBs: 8v2d
Q-score: 0.201
Huddy TF, Hsia Y, Kibler RD, Xu J, Bethel N, Nagarajan D, Redler R, Leung PJY, Weidle C, Courbet A, Yang EC, Bera AK, Coudray N, Calise SJ, Davila-Hernandez FA, Han HL, Carr KD, Li Z, McHugh R, Reggiano G, Kang A, Sankaran B, Dickinson MS, Coventry B, Brunette TJ, Liu Y, Dauparas J, Borst AJ, Ekiert D, Kollman JM, Bhabha G, Baker D
Nature (2024) 627 pp. 898-904 [ Pubmed: 38480887 DOI: doi:10.1038/s41586-024-07188-4 ]
- O43_129 component b (34 kDa, Protein from synthetic construct)
- Nanocage o43_129 (1 MDa, Complex from unidentified)
- O43_129 component a (33 kDa, Protein from synthetic construct)
Computational Designed Nanocage O43_129_+4
Resolution: 6.4 Å
EM Method: Single-particle
Fitted PDBs: 8v3b
Q-score: 0.217
Huddy TF, Hsia Y, Kibler RD, Xu J, Bethel N, Nagarajan D, Redler R, Leung PJY, Weidle C, Courbet A, Yang EC, Bera AK, Coudray N, Calise SJ, Davila-Hernandez FA, Han HL, Carr KD, Li Z, McHugh R, Reggiano G, Kang A, Sankaran B, Dickinson MS, Coventry B, Brunette TJ, Liu Y, Dauparas J, Borst AJ, Ekiert D, Kollman JM, Bhabha G, Baker D
Nature (2024) 627 pp. 898-904 [ Pubmed: 38480887 DOI: doi:10.1038/s41586-024-07188-4 ]
- O43_129_+4 component a (33 kDa, Protein from synthetic construct)
- O43_129_+4 component b (46 kDa, Protein from synthetic construct)
- Computational designed nanocage o43_129_+4 (Complex from unidentified)
Non-muscle F-actin decorated with non-muscle tropomyosin 1.6
Resolution: 3.9 Å
EM Method: Helical reconstruction
Fitted PDBs: 7ztc
Q-score: 0.42
Selvaraj M, Kokate SB, Reggiano G, Kogan K, Kotila T, Kremneva E, DiMaio F, Lappalainen P, Huiskonen JT
Cell Rep (2023) 42 pp. 111900-111900 [ Pubmed: 36586407 DOI: doi:10.1016/j.celrep.2022.111900 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Non-muscle tropomyosin 1.6 (11 kDa, Protein from Homo sapiens)
- Non-muscle f-actin decorated with non-muscle tropomyosin 1.6 (Complex from Homo sapiens)
- Actin, cytoplasmic 1 (41 kDa, Protein from Homo sapiens)
- Non-muscle tropomyosin 1.6 (Cellular component from Homo sapiens)
- Beta actin (non-muscle) (Cellular component from Homo sapiens)
Non-muscle F-actin decorated with non-muscle tropomyosin 3.2
Resolution: 4.6 Å
EM Method: Helical reconstruction
Fitted PDBs: 7ztd
Q-score: 0.36
Selvaraj M, Kokate SB, Reggiano G, Kogan K, Kotila T, Kremneva E, DiMaio F, Lappalainen P, Huiskonen JT
Cell Rep (2023) 42 pp. 111900-111900 [ Pubmed: 36586407 DOI: doi:10.1016/j.celrep.2022.111900 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Non-muscle tropomyosin 3.2 (Cellular component from Homo sapiens)
- Non-muscle f-actin decorated with non-muscle tropomyosin 3.2 (Complex from Homo sapiens)
- Non-muscle tropomyosin 3.2 (11 kDa, Protein from Homo sapiens)
- Actin, cytoplasmic 1 (41 kDa, Protein from Homo sapiens)
- Beta actin (non-muscle) (Cellular component from Homo sapiens)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7txz
Q-score: 0.518
Wang Z, Amaya M, Addetia A, Dang HV, Reggiano G, Yan L, Hickey AC, DiMaio F, Broder CC, Veesler D
Science (2022) 375 pp. 1373-1378 [ Pubmed: 35239409 DOI: doi:10.1126/science.abm5561 ]
- Glycoprotein g (60 kDa, Protein from Nipah henipavirus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Nipah virus attachment protein ectodomain in complex with nah1.3 neutralizing antibody fab fragment (Complex from Nipah henipavirus)
- Nah1.3 fab light chain (23 kDa, Protein from Mus sp.)
- Nah1.3 fab heavy chain (50 kDa, Protein from Mus sp.)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7ty0
Q-score: 0.439
Wang Z, Amaya M, Addetia A, Dang HV, Reggiano G, Yan L, Hickey AC, DiMaio F, Broder CC, Veesler D
Science (2022) 375 pp. 1373-1378 [ Pubmed: 35239409 DOI: doi:10.1126/science.abm5561 ]
- Nah fab light chain (23 kDa, Protein from Mus sp.)
- Glycoprotein g (60 kDa, Protein from Nipah henipavirus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Nipah virus attachment protein ectodomain in complex with nah1.3 neutralizing antibody fab fragment (Complex from Nipah henipavirus)
- Igh protein (50 kDa, Protein from Mus sp.)
Structure of Wild-Type Human Potassium Chloride Transporter KCC3 in NaCl (LMNG/CHS)
Resolution: 3.64 Å
EM Method: Single-particle
Fitted PDBs: 7ngb
Q-score: 0.395
Chi G, Ebenhoch R, Man H, Tang H, Tremblay LE, Reggiano G, Qiu X, Bohstedt T, Liko I, Almeida FG, Garneau AP, Wang D, McKinley G, Moreau CP, Bountra KD, Abrusci P, Mukhopadhyay SMM, Fernandez-Cid A, Slimani S, Lavoie JL, Burgess-Brown NA, Tehan B, DiMaio F, Jazayeri A, Isenring P, Robinson CV, Durr KL
EMBO J (2021) 40 pp. e107294-e107294 [ DOI: doi:10.15252/embj.2020107294 Pubmed: 34031912 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Isoform 2 of solute carrier family 12 member 6 (122 kDa, Protein from Homo sapiens)
- Homodimeric membrane protein complex (240 kDa, Complex from Homo sapiens)
Structure of Human Potassium Chloride Transporter KCC3 S45D/T940D/T997D in NaCl (Reference Map)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7ain
Q-score: 0.469
Chi G, Ebenhoch R, Man H, Tang H, Tremblay LE, Reggiano G, Qiu X, Bohstedt T, Liko I, Almeida FG, Garneau AP, Wang D, McKinley G, Moreau CP, Bountra KD, Abrusci P, Mukhopadhyay SMM, Fernandez-Cid A, Slimani S, Lavoie JL, Burgess-Brown NA, Tehan B, DiMaio F, Jazayeri A, Isenring P, Robinson CV, Durr KL
EMBO J (2021) 40 pp. e107294-e107294 [ DOI: doi:10.15252/embj.2020107294 Pubmed: 34031912 ]
- Homodimeric complex of human potassium chloride transporter kcc3b (240 kDa, Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Isoform 2 of solute carrier family 12 member 6 (122 kDa, Protein from Homo sapiens)