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 [ DOI: doi:10.1016/j.cell.2023.10.007 Pubmed: 37972591 ]
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Cav1.2 (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 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)
- Voltage-dependent l-type calcium channel subunit beta-3 (54 kDa, Protein from Homo sapiens)
- Voltage-dependent l-type calcium channel subunit alpha-1c (246 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- Voltage-dependent calcium channel subunit alpha-2/delta-1 (124 kDa, Protein from Homo sapiens)
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 [ DOI: doi:10.1016/j.cell.2023.10.007 Pubmed: 37972591 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Cav1.2 (Complex 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)
- Voltage-dependent l-type calcium channel subunit beta-3 (54 kDa, Protein from Homo sapiens)
- Voltage-dependent l-type calcium channel subunit alpha-1c (246 kDa, Protein from Homo sapiens)
- Amlodipine (408 Da, Ligand)
- Cholesterol (386 Da, Ligand)
- Calciseptin (7 kDa, Protein from Dendroaspis polylepis polylepis)
- Voltage-dependent calcium channel subunit alpha-2/delta-1 (124 kDa, Protein from Homo sapiens)
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 [ DOI: doi:10.1073/pnas.2309773120 Pubmed: 37782796 ]
- 1-o-octadecyl-sn-glycero-3-phosphocholine (510 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Human voltage-gated sodium channel nav1.7 with beta subunits (Complex from Homo sapiens)
- 1,2-dioleoyl-sn-glycero-3-phosphocholine (787 Da, Ligand)
- O-[(r)-{[(2r)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-l-serine (792 Da, Ligand)
- Sodium channel protein type 9 subunit alpha (226 kDa, Protein from Homo sapiens)
- Sodium channel subunit beta-2 (24 kDa, Protein from Homo sapiens)
- 6-(trifluoromethoxy)-1,3-benzothiazol-2-amine (234 Da, Ligand)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Sodium channel subunit beta-1 (24 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
Cryo-EM structure of Nav1.7 with LTG
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8thh
Q-score: 0.511
Huang J, Fan X, Jin X, Teng L, Yan N
PNAS (2023) 120 pp. e2309773120-e2309773120 [ DOI: doi:10.1073/pnas.2309773120 Pubmed: 37782796 ]
- 1-o-octadecyl-sn-glycero-3-phosphocholine (510 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Human voltage-gated sodium channel nav1.7 with beta subunits (Complex from Homo sapiens)
- 1,2-dioleoyl-sn-glycero-3-phosphocholine (787 Da, Ligand)
- O-[(r)-{[(2r)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-l-serine (792 Da, Ligand)
- Sodium channel protein type 9 subunit alpha (226 kDa, Protein from Homo sapiens)
- Sodium channel subunit beta-2 (24 kDa, Protein from Homo sapiens)
- (6m)-6-(2,3-dichlorophenyl)-1,2,4-triazine-3,5-diamine (256 Da, Ligand)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Sodium channel subunit beta-1 (24 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
Cryo-EM structure of Nav1.7 with LCM
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8s9b
Q-score: 0.513
Wu Q, Huang J, Fan X, Wang K, Jin X, Huang G, Li J, Pan X, Yan N
Nat Commun (2023) 14 pp. 3224-3224 [ Pubmed: 37270609 DOI: doi:10.1038/s41467-023-38942-3 ]
- 1-o-octadecyl-sn-glycero-3-phosphocholine (510 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Human voltage-gated sodium channel nav1.7 with beta subunits (Complex from Homo sapiens)
- 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 protein type 9 subunit alpha (226 kDa, Protein from Homo sapiens)
- Sodium channel subunit beta-2 (24 kDa, Protein from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Lacosamide (250 Da, Ligand)
- Sodium channel subunit beta-1 (24 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
Cryo-EM structure of Nav1.7 with CBD
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8g1a
Q-score: 0.472
Huang J, Fan X, Jin X, Jo S, Zhang HB, Fujita A, Bean BP, Yan N
Nat Commun (2023) 14 pp. 3613-3613 [ DOI: doi:10.1038/s41467-023-39307-6 Pubmed: 37330538 ]
- 1-o-octadecyl-sn-glycero-3-phosphocholine (510 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Human voltage-gated sodium channel nav1.7 with beta subunits (Complex from Homo sapiens)
- (3beta,14beta,17beta,25r)-3-[4-methoxy-3-(methoxymethyl)butoxy]spirost-5-en (544 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 protein type 9 subunit alpha (226 kDa, Protein from Homo sapiens)
- Sodium channel subunit beta-2 (24 kDa, Protein from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Cannabidiol (314 Da, Ligand)
- Sodium channel subunit beta-1 (24 kDa, Protein from Homo sapiens)
Structure of human Nav1.7 in complex with bupivacaine
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8i5b
Q-score: 0.507
Wu Q, Huang J, Fan X, Wang K, Jin X, Huang G, Li J, Pan X, Yan N
Nat Commun (2023) 14 pp. 3224-3224 [ Pubmed: 37270609 DOI: doi:10.1038/s41467-023-38942-3 ]
- 1-o-octadecyl-sn-glycero-3-phosphocholine (510 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 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 protein type 9 subunit alpha (230 kDa, Protein from Homo sapiens)
- Sodium channel subunit beta-2 (24 kDa, Protein from Homo sapiens)
- Human nav1.7 in complex with bupivacaine (250 kDa, Complex from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Levobupivacaine (288 Da, Ligand)
- Sodium channel subunit beta-1 (24 kDa, Protein from Homo sapiens)
Structure of human Nav1.7 in complex with PF-05089771
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8i5g
Q-score: 0.516
Wu Q, Huang J, Fan X, Wang K, Jin X, Huang G, Li J, Pan X, Yan N
Nat Commun (2023) 14 pp. 3224-3224 [ Pubmed: 37270609 DOI: doi:10.1038/s41467-023-38942-3 ]
- Pf-05089771 (500 Da, Ligand)
- 1-o-octadecyl-sn-glycero-3-phosphocholine (510 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- (3beta,14beta,17beta,25r)-3-[4-methoxy-3-(methoxymethyl)butoxy]spirost-5-en (544 Da, Ligand)
- 1,2-dioleoyl-sn-glycero-3-phosphocholine (787 Da, Ligand)
- Sodium channel subunit beta-1 (21 kDa, Protein from Homo sapiens)
- Sodium ion (22 Da, Ligand)
- Sodium channel subunit beta-2 (24 kDa, Protein from Homo sapiens)
- Sodium channel protein type 9 subunit alpha (226 kDa, Protein from Homo sapiens)
- Human nav1.7 in complex with bupivacaine (250 kDa, Complex from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Water (18 Da, Ligand)
Structure of human Nav1.7 in complex with Vinpocetine
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8i5x
Q-score: 0.477
Wu Q, Huang J, Fan X, Wang K, Jin X, Huang G, Li J, Pan X, Yan N
Nat Commun (2023) 14 pp. 3224-3224 [ Pubmed: 37270609 DOI: doi:10.1038/s41467-023-38942-3 ]
- 1-o-octadecyl-sn-glycero-3-phosphocholine (510 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- (3beta,14beta,17beta,25r)-3-[4-methoxy-3-(methoxymethyl)butoxy]spirost-5-en (544 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)
- Human nav1.7 in complex with vinpocetine (250 kDa, Complex from Homo sapiens)
- Sodium channel protein type 9 subunit alpha (230 kDa, Protein from Homo sapiens)
- Sodium channel subunit beta-2 (24 kDa, Protein from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Sodium channel subunit beta-1 (24 kDa, Protein from Homo sapiens)
- Vinpocetine (350 Da, Ligand)
Structure of human Nav1.7 in complex with vixotrigine
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8i5y
Q-score: 0.531
Wu Q, Huang J, Fan X, Wang K, Jin X, Huang G, Li J, Pan X, Yan N
Nat Commun (2023) 14 pp. 3224-3224 [ Pubmed: 37270609 DOI: doi:10.1038/s41467-023-38942-3 ]
- 1-o-octadecyl-sn-glycero-3-phosphocholine (510 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- (3beta,14beta,17beta,25r)-3-[4-methoxy-3-(methoxymethyl)butoxy]spirost-5-en (544 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 ion (22 Da, Ligand)
- Sodium channel protein type 9 subunit alpha (230 kDa, Protein from Homo sapiens)
- Sodium channel subunit beta-2 (24 kDa, Protein from Homo sapiens)
- (2s,3r,4e)-2-(acetylamino)-3-hydroxyoctadec-4-en-1-yl dihydrogen phosphate (421 Da, Ligand)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Vixotrigine (314 Da, Ligand)
- Sodium channel subunit beta-1 (24 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Human nav1.7 in complex with vixotrigine (250 kDa, Complex from Homo sapiens)