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 ]
- Leucine-rich repeat serine/threonine-protein kinase 2 (286 kDa, Protein from Homo sapiens)
- Rab12-lrrk2 (Complex from Homo sapiens)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Ras-related protein rab-12 (20 kDa, Protein from Homo sapiens)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
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 ]
- Leucine-rich repeat serine/threonine-protein kinase 2 (286 kDa, Protein from Homo sapiens)
- Rab12-lrrk2 (Complex from Homo sapiens)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Ras-related protein rab-12 (20 kDa, Protein from Homo sapiens)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 8jn2
Q-score: 0.442
Fibriansah G, Ng TS, Lim XN, Shebanova A, Ng LC, Tan SL, Tan AWK, Shi J, Crowe JE, Lok SM
To Be Published
- Dengue virus serotype 3 strain 863dk (Complex from Dengue virus type 3)
- Envelope protein (53 kDa, Protein from Dengue virus type 3)
- Human antibody denv-115 light chain (11 kDa, Protein from Homo sapiens)
- Human antibody denv-115 fab (heavy and light chain) (Complex from Homo sapiens)
- Dengue virus serotype 3 strain 863dk in complex with human antibody denv-115 fab at 4 deg c (Complex)
- Membrane protein (8 kDa, Protein from Dengue virus type 3)
- Human antibody denv-115 heavy chain (13 kDa, Protein from Homo sapiens)
Fibriansah G, Ng TS, Lim XN, Shebanova A, Ng LC, Tan SL, Tan AWK, Shi J, Crowe JE, Lok SM
To Be Published
- Dengue virus serotype 3 strain 863dk (Complex from Dengue virus type 3)
- Human antibody denv-115 fab (heavy and light chain) (Complex from Homo sapiens)
- Membrane protein (Protein from Dengue virus type 3)
- Human antibody denv-115 light chain (Protein from Homo sapiens)
- Envelope protein (Protein from Dengue virus type 3)
- Human antibody denv-115 heavy chain (Protein from Homo sapiens)
- Dengue virus serotype 3 strain 863dk in complex with human antibody denv-115 fab at 37 deg c (Complex)
SARS-CoV-2 Spike (BA.1) in complex with Fab of JH-8B
Resolution: 4.55 Å
EM Method: Single-particle
Fitted PDBs: 8yz6
Q-score: 0.21
Chen X, Mohapatra A, Nguyen HTV, Schimanski L, Kit Tan T, Rijal P, Chen CP, Cheng SH, Lee WH, Chou YC, Townsend AR, Ma C, Huang KA
PLoS Pathog (2024) 20 pp. e1012246-e1012246 [ DOI: doi:10.1371/journal.ppat.1012246 Pubmed: 38857264 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Fab light chain of jh-8b (11 kDa, Protein from Homo sapiens)
- Fab heavy chain of jh-8b (12 kDa, Protein from Homo sapiens)
- Spike glycoprotein (140 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 delta spike in complex with fab of je-5c (Complex from Severe acute respiratory syndrome coronavirus 2)
Resolution: 4.03 Å
EM Method: Single-particle
Fitted PDBs: 7y72
Q-score: 0.395
Chia WN, Tan CW, Tan AWK, Young B, Starr TN, Lopez E, Fibriansah G, Barr J, Cheng S, Yeoh AY, Yap WC, Lim BL, Ng TS, Sia WR, Zhu F, Chen S, Zhang J, Kwek MSS, Greaney AJ, Chen M, Au GG, Paradkar PN, Peiris M, Chung AW, Bloom JD, Lye D, Lok S, Wang LF
Sci Adv (2023) 9 pp. eade3470-eade3470 [ Pubmed: 37494438 DOI: doi:10.1126/sciadv.ade3470 ]
- Sars-cov-2 spike glycoprotein trimer complexed with fab fragment of anti-rbd antibody e7 (Complex from Homo sapiens)
- Fab e7 heavy chain (23 kDa, Protein from Homo sapiens)
- Fab e7 light chain (23 kDa, Protein from Homo sapiens)
- Spike glycoprotein (132 kDa, Protein from Homo sapiens)
SARS-CoV-2 Omicron BA.1 Spike in complex with IY-2A
Resolution: 4.28 Å
EM Method: Single-particle
Fitted PDBs: 8hhz
Q-score: 0.207
Huang KA, Chen X, Mohapatra A, Nguyen HTV, Schimanski L, Tan TK, Rijal P, Vester SK, Hills RA, Howarth M, Keeffe JR, Cohen AA, Kakutani LM, Wu YM, Shahed-Al-Mahmud M, Chou YC, Bjorkman PJ, Townsend AR, Ma C
Nat Commun (2023) 14 pp. 311-311 [ Pubmed: 36658148 DOI: doi:10.1038/s41467-023-35949-8 ]
- Iy-2a fab heavy chain (23 kDa, Protein from Homo sapiens)
- Sars-cov-2 delta spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
- Iy-2a fab light chain (23 kDa, Protein from Homo sapiens)
- Spike glycoprotein (140 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Complex of delta spike and iy-2a with two fabs bound to one spike in 3-rbd-up conformation (550 kDa, Complex)
- Iy-2a (Complex from Homo sapiens)
SARS-CoV-2 Spike ectodomain with Fab FI3A
Resolution: 4.8 Å
EM Method: Single-particle
Fitted PDBs: 7q0a
Q-score: 0.18
Huang KA, Zhou D, Tan TK, Chen C, Duyvesteyn HME, Zhao Y, Ginn HM, Qin L, Rijal P, Schimanski L, Donat R, Harding A, Gilbert-Jaramillo J, James W, Tree JA, Buttigieg K, Carroll M, Charlton S, Lien CE, Lin MY, Chen CP, Cheng SH, Chen X, Lin TY, Fry EE, Ren J, Ma C, Townsend AR, Stuart DI
Theranostics (2022) 12 pp. 1-17 [ Pubmed: 34987630 DOI: doi:10.7150/thno.65563 ]
- Fi3a fab light chain (11 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Fi3a fab heavy chain (12 kDa, Protein from Homo sapiens)
- Sars-cov2 spike ectodomain with fi3a fab (21 GDa, Complex)
- Sars-cov2 spike ectodomain (Complex from Severe acute respiratory syndrome coronavirus 2)
- Fi3a fab (Complex from Homo sapiens)
- Spike glycoprotein,spike ectodomain,spike protein s2' (145 kDa, Protein from Bat coronavirus Rp3/2004)
DENV2_NGC_Fab_C10 4degrees (3Fab:3E)
Resolution: 4.4 Å
EM Method: Single-particle
Fitted PDBs: 7v3i
Q-score: 0.381
Lim XX, Shu B, Zhang S, Tan AWK, Ng TS, Lim XN, Chew VS, Shi J, Screaton GR, Lok SM, Anand GS
Cell (2021) 184 pp. 6067-6080.e13 [ DOI: doi:10.1016/j.cell.2021.11.009 Pubmed: 34852238 ]
- Dengue virus 2 thailand/ngs-c/1944 (Complex from HOMO SAPIENS)
- Fab_c10_light_chain (14 kDa, Protein from Homo sapiens)
- Small envelope protein m (8 kDa, Protein from Dengue virus type 2 (strain Thailand/NGS-C/1944))
- Fab_c10_heavy_chain (11 kDa, Protein from Homo sapiens)
- Fab_c10 (Complex)
- Dengue virus 2 thailand/ngs-c/1944-fab_c10 (Complex from Dengue virus 2 Thailand/NGS-C/1944)
- Envelope protein e (54 kDa, Protein from Dengue virus type 2 (strain Thailand/NGS-C/1944))
Resolution: 4.9 Å
EM Method: Single-particle
Fitted PDBs: 7v3j
Q-score: -0.016
Lim XX, Shu B, Zhang S, Tan AWK, Ng TS, Lim XN, Chew VS, Shi J, Screaton GR, Lok SM, Anand GS
Cell (2021) 184 pp. 6067-6080.e13 [ DOI: doi:10.1016/j.cell.2021.11.009 Pubmed: 34852238 ]
- Small envelope protein m (8 kDa, Protein from Dengue virus type 2 (strain Thailand/NGS-C/1944))
- Fab_c10_heavy_chain (25 kDa, Protein from Homo sapiens)
- Fab_c10_light_chain (22 kDa, Protein from Homo sapiens)
- Dengue virus 2 thailand/ngs-c/1944 (Complex)
- Fab_c10 (Complex from Dengue virus 2 Thailand/NGS-C/1944)
- Dengue virus 2 thailand/ngs-c/1944 (Complex from Homo sapiens)
- Envelope protein e (54 kDa, Protein from Dengue virus type 2 (strain Thailand/NGS-C/1944))