The structure of NiV L-P complex
Hu S, Kim H, Yang P, Yu Z, Ludeke B, Mobilia S, Pan J, Stratton M, Bian Y, Fearns R, Abraham J
Cell (2025) 188 pp. 688-703.e18 [ Pubmed: 39837328 DOI: doi:10.1016/j.cell.2024.12.021 ]
- Phosphoprotein (78 kDa, Protein from Henipavirus nipahense)
- Nipah virus the large protein (l) with its cofactor phosphoprotein (p) (580 MDa, Complex from Henipavirus nipahense)
- Rna-directed rna polymerase l (257 kDa, Protein from Henipavirus nipahense)
- Zinc ion (65 Da, Ligand)
Cryo-EM structure of human SOD1 (WT) amyloid filament
Resolution: 3.39 Å
EM Method: Helical reconstruction
Fitted PDBs: 9jbo
Q-score: 0.475
Baek Y, Kim H, Lee D, Kim D, Jo E, Roh SH, Ha NC
PNAS (2025) 122 pp. e2408582122-e2408582122 [ DOI: doi:10.1073/pnas.2408582122 Pubmed: 39874287 ]
- Superoxide dismutase [cu-zn] (16 kDa, Protein from Homo sapiens)
- Amyloid filament of human wild-type sod1 protein (34 MDa, Complex from Homo sapiens)
Cryo-EM structure of human SOD1 (C6A/C111A) amyloid filament
Resolution: 3.18 Å
EM Method: Helical reconstruction
Fitted PDBs: 9jbp
Q-score: 0.488
Baek Y, Kim H, Lee D, Kim D, Jo E, Roh SH, Ha NC
PNAS (2025) 122 pp. e2408582122-e2408582122 [ DOI: doi:10.1073/pnas.2408582122 Pubmed: 39874287 ]
- Unassigned poly-alanine model (698 Da, Protein from Homo sapiens)
- Superoxide dismutase [cu-zn] (16 kDa, Protein from Homo sapiens)
- Amyloid filament of human c6a/c111a mutant sod1 protein (69 MDa, Complex from Homo sapiens)
Cryo-EM Structure of Mouse TLR4/MD-2/DLAM3 Complex
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8wry
Q-score: 0.533
To Be Published
- 2-(hydroxymethyl)-5-methoxy-3,6-bis(oxidanyl)pyran-4-one (188 Da, Ligand)
- (3r)-3-(tetradecanoyloxy)tetradecanoic acid (454 Da, Ligand)
- Lymphocyte antigen 96 (16 kDa, Protein from Mus musculus)
- Mouse tlr4/md2/dlam3 complex (Complex from Mus musculus)
- (3r)-3-(dodecanoyloxy)tetradecanoic acid (426 Da, Ligand)
- 2-amino-2-deoxy-4-o-phosphono-alpha-d-glucopyranose (259 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Toll-like receptor 4 (68 kDa, Protein from Mus musculus)
Cryo-EM Structure of Mouse TLR4/MD-2/DLAM5 Complex
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8wsa
Q-score: 0.475
To Be Published
- (3~{s})-3-decanoyloxytetradecanoic acid (398 Da, Ligand)
- Mouse tlr4/md2/dlam5 complex (Complex from Mus musculus)
- (3r)-3-(tetradecanoyloxy)tetradecanoic acid (454 Da, Ligand)
- Lymphocyte antigen 96 (16 kDa, Protein from Mus musculus)
- [(2~{r},3~{s},4~{r},5~{s})-2-(hydroxymethyl)-5-methoxy-4,6-bis(oxidanyl)oxan-3-yl] dihydrogen phosphate (274 Da, Ligand)
- (3r)-3-(dodecanoyloxy)tetradecanoic acid (426 Da, Ligand)
- 2-amino-2-deoxy-4-o-phosphono-alpha-d-glucopyranose (259 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Toll-like receptor 4 (68 kDa, Protein from Mus musculus)
Cryo-EM Structure of Human TLR4/MD-2/DLAM3 Complex
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8wta
Q-score: 0.474
To Be Published
- Toll-like receptor 4 (68 kDa, Protein from Homo sapiens)
- 2-(hydroxymethyl)-5-methoxy-3,6-bis(oxidanyl)pyran-4-one (188 Da, Ligand)
- Human tlr4/md2/dlam3 complex (Complex from Homo sapiens)
- Lymphocyte antigen 96 (16 kDa, Protein from Homo sapiens)
- (3r)-3-(tetradecanoyloxy)tetradecanoic acid (454 Da, Ligand)
- (3r)-3-(dodecanoyloxy)tetradecanoic acid (426 Da, Ligand)
- 2-amino-2-deoxy-4-o-phosphono-alpha-d-glucopyranose (259 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Cryo-EM Structure of Human TLR4/MD-2/DLAM5 Complex
Resolution: 2.24 Å
EM Method: Single-particle
Fitted PDBs: 8wo1
Q-score: 0.587
To Be Published
- (3~{s})-3-decanoyloxytetradecanoic acid (398 Da, Ligand)
- Toll-like receptor 4 (68 kDa, Protein from Homo sapiens)
- Lymphocyte antigen 96 (16 kDa, Protein from Homo sapiens)
- Human tlr4/md2/dlam5 complex (Complex from Homo sapiens)
- (3r)-3-(tetradecanoyloxy)tetradecanoic acid (454 Da, Ligand)
- [(2~{r},3~{s},4~{r},5~{s})-2-(hydroxymethyl)-5-methoxy-4,6-bis(oxidanyl)oxan-3-yl] dihydrogen phosphate (274 Da, Ligand)
- (3r)-3-(dodecanoyloxy)tetradecanoic acid (426 Da, Ligand)
- 2-amino-2-deoxy-4-o-phosphono-alpha-d-glucopyranose (259 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Cryo-EM structure of Rab12-LRRK2 complex in the LRRK2 monomer state
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 8vh4
Q-score: 0.333
Li X, Zhu H, Huang BT, Li X, Kim H, Tan H, Zhang Y, Choi I, Peng J, Xu P, Sun J, Yue Z
Nat Commun (2024) 15 pp. 8434-8434 [ Pubmed: 39343966 DOI: doi:10.1038/s41467-024-52723-6 ]
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Rab12-lrrk2 (Complex from Homo sapiens)
- Leucine-rich repeat serine/threonine-protein kinase 2 (286 kDa, Protein from Homo sapiens)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- Ras-related protein rab-12 (20 kDa, Protein from Homo sapiens)
Cryo-EM structure of Rab12-LRRK2 complex in the LRRK2 dimer state
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 8vh5
Q-score: 0.248
Li X, Zhu H, Huang BT, Li X, Kim H, Tan H, Zhang Y, Choi I, Peng J, Xu P, Sun J, Yue Z
Nat Commun (2024) 15 pp. 8434-8434 [ Pubmed: 39343966 DOI: doi:10.1038/s41467-024-52723-6 ]
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Rab12-lrrk2 (Complex from Homo sapiens)
- Leucine-rich repeat serine/threonine-protein kinase 2 (286 kDa, Protein from Homo sapiens)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- Ras-related protein rab-12 (20 kDa, Protein from Homo sapiens)
Cryo-EM structure of Maltose Binding Protein
Resolution: 2.3 Å
EM Method: Single-particle
Fitted PDBs: 8ybe
Q-score: 0.676
To Be Published
- Maltose binding protein monomer (Complex from Escherichia coli)
- Water (18 Da, Ligand)
- Maltose/maltodextrin-binding periplasmic protein (40 kDa, Protein from Escherichia coli)