Cryo-EM structure of Rab29-LRRK2 complex in the LRRK2 monomer state
Resolution: 4.13 Å
EM Method: Single-particle
Fitted PDBs: 8fo2
Q-score: 0.333
Zhu H, Tonelli F, Turk M, Prescott A, Alessi DR, Sun J
Science (2023) 382 pp. 1404-1411 [ DOI: doi:10.1126/science.adi9926 Pubmed: 38127736 ]
- Ras-related protein rab-7l1 (20 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Lrrk2-rab29 (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)
Cryo-EM structure of Rab29-LRRK2 complex in the LRRK2 dimer state
Resolution: 3.88 Å
EM Method: Single-particle
Fitted PDBs: 8fo8
Q-score: 0.264
Zhu H, Tonelli F, Turk M, Prescott A, Alessi DR, Sun J
Science (2023) 382 pp. 1404-1411 [ DOI: doi:10.1126/science.adi9926 Pubmed: 38127736 ]
- Ras-related protein rab-7l1 (20 kDa, Protein from Homo sapiens)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Rab29-lrrk2 (Complex from Homo sapiens)
- Leucine-rich repeat serine/threonine-protein kinase 2 (286 kDa, Protein from Homo sapiens)
Cryo-EM structure of Rab29-LRRK2 complex in the LRRK2 tetramer state
Resolution: 3.48 Å
EM Method: Single-particle
Fitted PDBs: 8fo9
Q-score: 0.307
Zhu H, Tonelli F, Turk M, Prescott A, Alessi DR, Sun J
Science (2023) 382 pp. 1404-1411 [ DOI: doi:10.1126/science.adi9926 Pubmed: 38127736 ]
- Ras-related protein rab-7l1 (20 kDa, Protein from Homo sapiens)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Rab29-lrrk2 (Complex from Homo sapiens)
- Leucine-rich repeat serine/threonine-protein kinase 2 (286 kDa, Protein from Homo sapiens)
Cryo-EM structure of LRRK2 bound with type-I inhibitor DNL201
Resolution: 4.02 Å
EM Method: Single-particle
Fitted PDBs: 8smc
Q-score: 0.435
Zhu H, Tonelli F, Turk M, Prescott A, Alessi DR, Sun J
Science (2023) 382 pp. 1404-1411 [ DOI: doi:10.1126/science.adi9926 Pubmed: 38127736 ]
- Non-specific serine/threonine protein kinase (136 kDa, Protein from Homo sapiens)
- 2-methyl-2-(3-methyl-4-{[4-(methylamino)-5-(trifluoromethyl)pyrimidin-2-yl]amino}-1h-pyrazol-1-yl)propanenitrile (339 Da, Ligand)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Lrrk2 (Complex from Homo sapiens)
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 7yrg
Q-score: 0.227
Huang L, Wang Y, Long H, Zhu H, Wen Z, Zhang L, Zhang W, Guo Z, Wang L, Tang F, Hu J, Bao K, Zhu P, Li G, Zhou Z
Mol Cell (2023) 83 pp. 2884-2895.e7 [ Pubmed: 37536340 DOI: doi:10.1016/j.molcel.2023.07.001 ]
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Histone (Complex from Homo sapiens)
- Histone h2b 1.1 (10 kDa, Protein from Xenopus laevis)
- Histone methyltransferase and nucleosome complex (Complex)
- S-adenosylmethionine (398 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna (146-mer) (45 kDa, DNA from Homo sapiens)
- Histone h3.2 (12 kDa, Protein from Xenopus laevis)
- Histone,suv420h1 (Complex from Xenopus laevis)
- Histone h2a.z (12 kDa, Protein from Homo sapiens)
- [histone h4]-n-methyl-l-lysine20 n-methyltransferase kmt5b (32 kDa, Protein from Homo sapiens)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7yrd
Q-score: 0.484
Huang L, Wang Y, Long H, Zhu H, Wen Z, Zhang L, Zhang W, Guo Z, Wang L, Tang F, Hu J, Bao K, Zhu P, Li G, Zhou Z
Mol Cell (2023) 83 pp. 2884-2895.e7 [ Pubmed: 37536340 DOI: doi:10.1016/j.molcel.2023.07.001 ]
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Histone h2b 1.1 (10 kDa, Protein from Xenopus laevis)
- S-adenosylmethionine (398 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna (146-mer) (45 kDa, DNA from Homo sapiens)
- Histone methyltransferase and nucleosome complex (Complex from Homo sapiens)
- Histone h3.2 (12 kDa, Protein from Xenopus laevis)
- Histone h2a.z (12 kDa, Protein from Homo sapiens)
- [histone h4]-n-methyl-l-lysine20 n-methyltransferase kmt5b (32 kDa, Protein from Homo sapiens)
Cryo-EM structure of the HCMV pentamer bound by Fabs 2-18 and 8I21
Resolution: 4.02 Å
EM Method: Single-particle
Fitted PDBs: 7kbb
Q-score: 0.274
Wrapp D, Ye X, Ku Z, Su H, Jones HG, Wang N, Mishra AK, Freed DC, Li F, Tang A, Li L, Jaijyan DK, Zhu H, Wang D, Fu TM, Zhang N, An Z, McLellan JS
Sci Adv (2022) 8 pp. eabm2546-eabm2546 [ Pubmed: 35275718 DOI: doi:10.1126/sciadv.abm2546 ]
- 2-18 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Fab 8i21 (Complex from Homo sapiens)
- Hcmv pentamer bound by antibodies 2-18 and 8i21 (280 kDa, Complex)
- Envelope glycoprotein ul130 (21 kDa, Protein from Human cytomegalovirus)
- Fab 2-18 (Complex from Homo sapiens)
- Envelope protein ul128 (16 kDa, Protein from Human cytomegalovirus)
- Ul131a (13 kDa, Protein from Human cytomegalovirus)
- 8i21 fab light chain (23 kDa, Protein from Homo sapiens)
- 8i21 fab heavy chain (25 kDa, Protein from Homo sapiens)
- Hcmv pentamer (refinement focused on three of the subunits) (Complex from Human betaherpesvirus 5)
- 2-18 fab light chain (23 kDa, Protein from Homo sapiens)
Cryo-EM structure of the HCMV pentamer bound by human neuropilin 2
Resolution: 3.65 Å
EM Method: Single-particle
Fitted PDBs: 7m22
Q-score: 0.409
Wrapp D, Ye X, Ku Z, Su H, Jones HG, Wang N, Mishra AK, Freed DC, Li F, Tang A, Li L, Jaijyan DK, Zhu H, Wang D, Fu TM, Zhang N, An Z, McLellan JS
Sci Adv (2022) 8 pp. eabm2546-eabm2546 [ Pubmed: 35275718 DOI: doi:10.1126/sciadv.abm2546 ]
- Domains a1a2b1b2 of human neuropilin 2 (Complex from Homo sapiens)
- Envelope glycoprotein ul130 (21 kDa, Protein from Human cytomegalovirus)
- Envelope protein ul128 (16 kDa, Protein from Human cytomegalovirus)
- Ul131a (13 kDa, Protein from Human cytomegalovirus)
- The ectodomain of the hcmv pentamer (Complex from Human betaherpesvirus 5)
- The ectodomain of the hcmv pentamer bound by domains a1a2b1b2 of human neuropilin 2 (230 kDa, Complex)
- Calcium ion (40 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Neuropilin-2 (65 kDa, Protein from Homo sapiens)