Cryo-EM structure of the dystrophin glycoprotein complex
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8yt8
Q-score: 0.412
Wan L, Ge X, Xu Q, Huang G, Yang T, Campbell KP, Yan Z, Wu J
Nature (2025) 637 pp. 1252-1260 [ Pubmed: 39663450 DOI: doi:10.1038/s41586-024-08310-2 ]
- Unknown segment (559 Da, Protein from Mus musculus)
- Gamma-sarcoglycan (28 kDa, Protein from Mus musculus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Dystrobrevin alpha (23 kDa, Protein from Mus musculus)
- O-[(r)-{[(2r)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-l-serine (792 Da, Ligand)
- Beta-dystroglycan (31 kDa, Protein from Mus musculus)
- Calcium ion (40 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dystrophin glycoprotein complex, dgc (Complex from Mus musculus)
- Delta-sarcoglycan (29 kDa, Protein from Mus musculus)
- Beta-sarcoglycan (28 kDa, Protein from Mus musculus)
- Cholesterol (386 Da, Ligand)
- Sarcospan (19 kDa, Protein from Mus musculus)
- Alpha-sarcoglycan (32 kDa, Protein from Mus musculus)
- Dystrophin (38 kDa, Protein from Mus musculus)
Resolution: 2.95 Å
EM Method: Single-particle
Fitted PDBs: 8x90
Q-score: 0.439
Li Z, Cong Y, Wu T, Wang T, Lou X, Yang X, Yan N
Cell Res (2024) 34 pp. 455-457 [ Pubmed: 38443561 DOI: doi:10.1038/s41422-024-00940-5 ]
- Voltage-dependent p/q-type calcium channel subunit alpha-1a (287 kDa, Protein from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Voltage-dependent l-type calcium channel subunit beta-3 (56 kDa, Protein from Homo sapiens)
- Voltage-gated p/q type calcium channel (Complex from Homo sapiens)
- Voltage-dependent calcium channel subunit alpha-2/delta-1 (126 kDa, Protein from Homo sapiens)
- [(2r)-1-octadecanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8z)-icosa-5,8,11,14-tetraenoate (1 kDa, Ligand)
- 1,2-didecanoyl-sn-glycero-3-[phospho-l-serine] (566 Da, Ligand)
- Cholesterol (386 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
P/Q type calcium channel in complex with omega-conotoxin MVIIC
Resolution: 3.11 Å
EM Method: Single-particle
Fitted PDBs: 8x91
Q-score: 0.417
Li Z, Cong Y, Wu T, Wang T, Lou X, Yang X, Yan N
Cell Res (2024) 34 pp. 455-457 [ Pubmed: 38443561 DOI: doi:10.1038/s41422-024-00940-5 ]
- Voltage-dependent p/q-type calcium channel subunit alpha-1a (287 kDa, Protein from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Omega-conotoxin mviic (2 kDa, Protein from Conus magus)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Voltage-dependent l-type calcium channel subunit beta-3 (56 kDa, Protein from Homo sapiens)
- Voltage-gated p/q type calcium channel (Complex from Homo sapiens)
- Voltage-dependent calcium channel subunit alpha-2/delta-1 (126 kDa, Protein from Homo sapiens)
- [(2r)-1-octadecanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8z)-icosa-5,8,11,14-tetraenoate (1 kDa, Ligand)
- Cholesterol (386 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
P/Q type calcium channel in complex with omega-Agatoxin IVA
Resolution: 2.92 Å
EM Method: Single-particle
Fitted PDBs: 8x93
Q-score: 0.463
Li Z, Cong Y, Wu T, Wang T, Lou X, Yang X, Yan N
Cell Res (2024) 34 pp. 455-457 [ Pubmed: 38443561 DOI: doi:10.1038/s41422-024-00940-5 ]
- Voltage-dependent p/q-type calcium channel subunit alpha-1a (287 kDa, Protein from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Voltage-dependent l-type calcium channel subunit beta-3 (56 kDa, Protein from Homo sapiens)
- Voltage-dependent calcium channel subunit alpha-2/delta-1 (126 kDa, Protein from Homo sapiens)
- Voltage-gated p/q type calcium channel in complex with omega-agatoxin iva (Complex from Homo sapiens)
- [(2r)-1-octadecanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8z)-icosa-5,8,11,14-tetraenoate (1 kDa, Ligand)
- Cholesterol (386 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Voltage-gated sodium channel Nav1.7 variant M9
Resolution: 2.89 Å
EM Method: Single-particle
Fitted PDBs: 8xmm
Q-score: 0.544
Li Z, Wu Q, Huang G, Jin X, Li J, Pan X, Yan N
PNAS (2024) 121 pp. e2322899121-e2322899121 [ Pubmed: 38381792 DOI: doi:10.1073/pnas.2322899121 ]
- 1-o-octadecyl-sn-glycero-3-phosphocholine (510 Da, Ligand)
- Voltage-gated sodium channel nav1.7-m9 (Complex from Homo sapiens)
- (2s,3r,4e)-2-(acetylamino)-3-hydroxyoctadec-4-en-1-yl dihydrogen phosphate (421 Da, Ligand)
- O-[(r)-{[(2r)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-l-serine (792 Da, Ligand)
- 1,2-dioleoyl-sn-glycero-3-phosphocholine (787 Da, Ligand)
- Sodium channel subunit beta-1 (26 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Sodium channel protein type 9 subunit alpha (231 kDa, Protein from Homo sapiens)
Human L-type voltage-gated calcium channel Cav1.2 at 2.9 Angstrom resolution
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8we6
Q-score: 0.491
Gao S, Yao X, Chen J, Huang G, Fan X, Xue L, Li Z, Wu T, Zheng Y, Huang J, Jin X, Wang Y, Wang Z, Yu Y, Liu L, Pan X, Song C, Yan N
Cell (2023) 186 pp. 5363-5374.e16 [ Pubmed: 37972591 DOI: doi:10.1016/j.cell.2023.10.007 ]
- Voltage-dependent l-type calcium channel subunit beta-3 (54 kDa, Protein from Homo sapiens)
- Voltage-dependent calcium channel subunit alpha-2/delta-1 (124 kDa, Protein from Homo sapiens)
- Voltage-dependent l-type calcium channel subunit alpha-1c (246 kDa, Protein from Homo sapiens)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- [(2r)-1-octadecanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8z)-icosa-5,8,11,14-tetraenoate (1 kDa, Ligand)
- Cholesterol (386 Da, Ligand)
- Cav1.2 (Complex from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8we8
Q-score: 0.475
Gao S, Yao X, Chen J, Huang G, Fan X, Xue L, Li Z, Wu T, Zheng Y, Huang J, Jin X, Wang Y, Wang Z, Yu Y, Liu L, Pan X, Song C, Yan N
Cell (2023) 186 pp. 5363-5374.e16 [ Pubmed: 37972591 DOI: doi:10.1016/j.cell.2023.10.007 ]
- Calciseptin (7 kDa, Protein from Dendroaspis polylepis polylepis)
- Voltage-dependent l-type calcium channel subunit beta-3 (54 kDa, Protein from Homo sapiens)
- Voltage-dependent calcium channel subunit alpha-2/delta-1 (124 kDa, Protein from Homo sapiens)
- Voltage-dependent l-type calcium channel subunit alpha-1c (246 kDa, Protein from Homo sapiens)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Amlodipine (408 Da, Ligand)
- [(2r)-1-octadecanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8z)-icosa-5,8,11,14-tetraenoate (1 kDa, Ligand)
- Cholesterol (386 Da, Ligand)
- Cav1.2 (Complex from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8we9
Q-score: 0.47
Gao S, Yao X, Chen J, Huang G, Fan X, Xue L, Li Z, Wu T, Zheng Y, Huang J, Jin X, Wang Y, Wang Z, Yu Y, Liu L, Pan X, Song C, Yan N
Cell (2023) 186 pp. 5363-5374.e16 [ Pubmed: 37972591 DOI: doi:10.1016/j.cell.2023.10.007 ]
- Voltage-dependent l-type calcium channel subunit beta-3 (54 kDa, Protein from Homo sapiens)
- Voltage-dependent calcium channel subunit alpha-2/delta-1 (124 kDa, Protein from Homo sapiens)
- Voltage-dependent l-type calcium channel subunit alpha-1c (246 kDa, Protein from Homo sapiens)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- [(2r)-1-octadecanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8z)-icosa-5,8,11,14-tetraenoate (1 kDa, Ligand)
- Cholesterol (386 Da, Ligand)
- Cav1.2 (Complex from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8wea
Q-score: 0.349
Gao S, Yao X, Chen J, Huang G, Fan X, Xue L, Li Z, Wu T, Zheng Y, Huang J, Jin X, Wang Y, Wang Z, Yu Y, Liu L, Pan X, Song C, Yan N
Cell (2023) 186 pp. 5363-5374.e16 [ Pubmed: 37972591 DOI: doi:10.1016/j.cell.2023.10.007 ]
- (3beta,14beta,17beta,25r)-3-[4-methoxy-3-(methoxymethyl)butoxy]spirost-5-en (544 Da, Ligand)
- Voltage-dependent calcium channel subunit alpha-2/delta-1 (124 kDa, Protein from Homo sapiens)
- Voltage-dependent l-type calcium channel subunit alpha-1c (246 kDa, Protein from Homo sapiens)
- 4-[(2-bromanyl-4,5-dimethoxy-phenyl)methyl]-4-[2-[2-[(1~{r},2~{s},5~{r})-6,6-dimethyl-2-bicyclo[3.1.1]heptanyl]ethoxy]ethyl]morpholin-4-ium (511 Da, Ligand)
- Cav1.2 (Complex from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Cryo-EM structure of Nav1.7 with RLZ
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8thg
Q-score: 0.483
Huang J, Fan X, Jin X, Teng L, Yan N
PNAS (2023) 120 pp. e2309773120-e2309773120 [ Pubmed: 37782796 DOI: doi:10.1073/pnas.2309773120 ]
- Sodium channel protein type 9 subunit alpha (226 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Sodium channel subunit beta-2 (24 kDa, Protein from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- O-[(r)-{[(2r)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-l-serine (792 Da, Ligand)
- Sodium channel subunit beta-1 (24 kDa, Protein from Homo sapiens)
- 6-(trifluoromethoxy)-1,3-benzothiazol-2-amine (234 Da, Ligand)
- 1,2-dioleoyl-sn-glycero-3-phosphocholine (787 Da, Ligand)
- Human voltage-gated sodium channel nav1.7 with beta subunits (Complex from Homo sapiens)
- 1-o-octadecyl-sn-glycero-3-phosphocholine (510 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)