Human transthyretin covalently modified with A2-derived stilbene in the canonical conformation
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8ve1
Q-score: 0.607
Basanta B, Nugroho K, Yan NL, Kline GM, Powers ET, Tsai FJ, Wu M, Hansel-Harris A, Chen JS, Forli S, Kelly JW, Lander GC
Nat Struct Mol Biol (2025) [ Pubmed: 39843982 DOI: doi:10.1038/s41594-024-01472-7 ]
- 3-(dimethylamino)-5-[(e)-2-(4-hydroxy-3,5-dimethylphenyl)ethenyl]benzoic acid (311 Da, Ligand)
- Transthyretin (13 kDa, Protein from Homo sapiens)
- Transthyretin (56 kDa, Complex from Homo sapiens)
- Water (18 Da, Ligand)
(Biarylamine-FT2-WT)1(C10A)3-human transthyretin in the compressed conformation
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8ve5
Q-score: 0.489
Basanta B, Nugroho K, Yan NL, Kline GM, Powers ET, Tsai FJ, Wu M, Hansel-Harris A, Chen JS, Forli S, Kelly JW, Lander GC
Nat Struct Mol Biol (2025) [ Pubmed: 39843982 DOI: doi:10.1038/s41594-024-01472-7 ]
- Transthyretin (15 kDa, Protein from Homo sapiens)
- 2-[(3,5-dichloro-4-trioxidanylphenyl)amino]benzoic acid (330 Da, Ligand)
- Transthyretin (57 kDa, Complex from Homo sapiens)
(Biarylamine-FT2-WT)1(C10A)3-human transthyretin in the frayed conformation
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 8ve6
Q-score: 0.447
Basanta B, Nugroho K, Yan NL, Kline GM, Powers ET, Tsai FJ, Wu M, Hansel-Harris A, Chen JS, Forli S, Kelly JW, Lander GC
Nat Struct Mol Biol (2025) [ Pubmed: 39843982 DOI: doi:10.1038/s41594-024-01472-7 ]
- Transthyretin (15 kDa, Protein from Homo sapiens)
- 2-[(3,5-dichloro-4-trioxidanylphenyl)amino]benzoic acid (330 Da, Ligand)
- Transthyretin (57 kDa, Complex from Homo sapiens)
Human transthyretin covalently modified with A2-derived stilbene in the compressed conformation
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8ve0
Q-score: 0.529
Basanta B, Nugroho K, Yan NL, Kline GM, Powers ET, Tsai FJ, Wu M, Hansel-Harris A, Chen JS, Forli S, Kelly JW, Lander GC
Nat Struct Mol Biol (2025) [ Pubmed: 39843982 DOI: doi:10.1038/s41594-024-01472-7 ]
- 3-(dimethylamino)-5-[(e)-2-(4-hydroxy-3,5-dimethylphenyl)ethenyl]benzoic acid (311 Da, Ligand)
- Transthyretin (13 kDa, Protein from Homo sapiens)
- Transthyretin (56 kDa, Complex from Homo sapiens)
Cryo-electron microscopy structure of human mt-SerRS in complex with mt-tRNA(UGA-TL)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8ffy
Q-score: 0.415
Kuhle B, Hirschi M, Doerfel LK, Lander GC, Schimmel P
Nat Commun (2023) 14 pp. 4794-4794 [ DOI: doi:10.1038/s41467-023-40354-2 Pubmed: 37558671 ]
- Serine--trna ligase, mitochondrial (58 kDa, Protein from Homo sapiens)
- Mt-trna(uga-tl) (21 kDa, RNA from Homo sapiens)
- Human mt-serrs in complex with mt-trna(uga-tl) and sersa (Complex from Homo sapiens)
- 5'-o-(n-(l-seryl)-sulfamoyl)adenosine (433 Da, Ligand)
Compressed conformation of nighttime state KaiC
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7s65
Q-score: 0.49
Swan JA, Sandate CR, Chavan AG, Freeberg AM, Etwaru D, Ernst DC, Palacios JG, Golden SS, LiWang A, Lander GC, Partch CL
Nat Struct Mol Biol (2022) 29 pp. 759-766 [ DOI: doi:10.1038/s41594-022-00803-w Pubmed: 35864165 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Compressed state hexamer of nighttime state phosphomutant kaic (kaic-ea) (350 kDa, Complex from Synechococcus elongatus)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Circadian clock protein kinase kaic (58 kDa, Protein from Synechococcus elongatus)
Extended conformation of nighttime state KaiC
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7s66
Q-score: 0.554
Swan JA, Sandate CR, Chavan AG, Freeberg AM, Etwaru D, Ernst DC, Palacios JG, Golden SS, LiWang A, Lander GC, Partch CL
Nat Struct Mol Biol (2022) 29 pp. 759-766 [ DOI: doi:10.1038/s41594-022-00803-w Pubmed: 35864165 ]
- Magnesium ion (24 Da, Ligand)
- Circadian clock protein kinase kaic (58 kDa, Protein from Synechococcus elongatus)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Extended state hexamer of nighttime state phosphomutant kaic (kaic-ea) (350 kDa, Complex from Synechococcus elongatus)
Extended conformation of daytime state KaiC
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7s67
Q-score: 0.408
Swan JA, Sandate CR, Chavan AG, Freeberg AM, Etwaru D, Ernst DC, Palacios JG, Golden SS, LiWang A, Lander GC, Partch CL
Nat Struct Mol Biol (2022) 29 pp. 759-766 [ DOI: doi:10.1038/s41594-022-00803-w Pubmed: 35864165 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Compressed state hexamer of nighttime state phosphomutant kaic (kaic-ea) (350 kDa, Complex from Synechococcus elongatus)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Circadian clock protein kinase kaic (58 kDa, Protein from Synechococcus elongatus)
Cryo-EM structure of Ephydatia fluviatilis PiwiA-piRNA complex
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7kx7
Q-score: 0.457
Anzelon TA, Chowdhury S, Hughes SM, Xiao Y, Lander GC, MacRae IJ
Nature (2021) 597 pp. 285-289 [ Pubmed: 34471284 DOI: doi:10.1038/s41586-021-03856-x ]
- Complex between efpiwi and pirna (83 kDa, Complex)
- Piwi-a (88 kDa, Protein from Ephydatia fluviatilis)
- Piwi-a (Complex from Ephydatia fluviatilis)
- Magnesium ion (24 Da, Ligand)
- Rna (5'-r(p*up*cp*up*cp*ap*gp*(omc))-3') (8 kDa, RNA from synthetic construct)
- Pirna (Complex from synthetic construct)
Cryo-EM structure of Ephydatia fluviatilis PiwiA-piRNA-target complex
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7kx9
Q-score: 0.461
Anzelon TA, Chowdhury S, Hughes SM, Xiao Y, Lander GC, MacRae IJ
Nature (2021) 597 pp. 285-289 [ Pubmed: 34471284 DOI: doi:10.1038/s41586-021-03856-x ]
- Rna (5'-r(p*up*cp*up*cp*up*up*gp*ap*gp*up*up*gp*gp*ap*cp*ap*ap*ap*up*gp*gp*cp*ap*(omg))-3') (7 kDa, RNA from synthetic construct)
- Pirna-target (Complex from synthetic construct)
- Piwi-a (88 kDa, Protein from Ephydatia fluviatilis)
- Piwi-a (Complex from Ephydatia fluviatilis)
- Efpiwi-pirna-target complex (94 kDa, Complex)
- Rna (5'-r(p*up*gp*up*cp*cp*ap*ap*cp*up*cp*ap*ap*gp*ap*gp*a)-3') (5 kDa, RNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)