Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 8y1v
Q-score: 0.333
To Be Published
- N-methyl-d-aspartate receptors (400 MDa, Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- (2~{r},3~{s},4~{s},5~{r},6~{r})-2-(hydroxymethyl)-6-[(2~{s})-2-methyl-4-[(1~{r},2~{r},4~{s},6~{s},7~{s},8~{r},9~{s},12~{s},13~{r},16~{s},18~{r})-7,9,13,18-tetramethyl-16-oxidanyl-5-oxapentacyclo[10.8.0.0^{2,9}.0^{4,8}.0^{13,18}]icosan-6-yl]butoxy]oxane-3,4,5-triol (592 Da, Ligand)
- Glutamate receptor ionotropic, nmda 2d (99 kDa, Protein from Homo sapiens)
- Isoform 6 of glutamate receptor ionotropic, nmda 1 (97 kDa, Protein from Homo sapiens)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 9c0s
Q-score: 0.569
Biester A, Grahame DA, Drennan CL
PNAS (2024) 121 pp. e2410995121-e2410995121 [ Pubmed: 39361653 DOI: doi:10.1073/pnas.2410995121 ]
- Fe3-s4 cluster (295 Da, Ligand)
- Nickel (ii) ion (58 Da, Ligand)
- Acetyl-coa decarbonylase/synthase complex subunit beta 2 (52 kDa, Protein from Methanosarcina thermophila)
- Fe(3)-ni(1)-s(4) cluster (410 Da, Ligand)
- Acetyl-coa decarbonylase/synthase complex (265 kDa, Complex from Methanosarcina thermophila)
- Acetyl-coa decarbonylase/synthase complex subunit alpha 2 (87 kDa, Protein from Methanosarcina thermophila)
- Carbon monoxide (28 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Acetyl-coa decarbonylase/synthase complex subunit epsilon 2 (18 kDa, Protein from Methanosarcina thermophila)
Carbon monoxide dehydrogenase/acetyl-CoA synthase (CODH/ACS) hexamer from Methanosarcina thermophila
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 9c0t
Q-score: 0.586
Biester A, Grahame DA, Drennan CL
PNAS (2024) 121 pp. e2410995121-e2410995121 [ Pubmed: 39361653 DOI: doi:10.1073/pnas.2410995121 ]
- Nickel (ii) ion (58 Da, Ligand)
- Acetyl-coa decarbonylase/synthase complex subunit beta 2 (52 kDa, Protein from Methanosarcina thermophila)
- Fe(3)-ni(1)-s(4) cluster (410 Da, Ligand)
- Acetyl-coa decarbonylase/synthase complex subunit alpha 2 (87 kDa, Protein from Methanosarcina thermophila)
- Acetyl-coa decarbonylase/synthase complex (318 kDa, Complex from Methanosarcina thermophila)
- Carbon monoxide (28 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Acetyl-coa decarbonylase/synthase complex subunit epsilon 2 (18 kDa, Protein from Methanosarcina thermophila)
Domoate-bound GluK2 kainate receptor in partially-open conformation 1
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 8gc2
Q-score: 0.311
To Be Published
- Glutamate receptor ionotropic, kainate 2 (98 kDa, Protein from Rattus norvegicus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- (2s,3s,4s)-2-carboxy-4-[(1z,3e,5r)-5-carboxy-1-methyl-1,3-hexadienyl]-3-pyrrolidineacetic acid (311 Da, Ligand)
- Homotetrameric gluk2 bound with domoate state 1 (Complex from Rattus norvegicus)
Domote-bound GluK2 kainate receptors in partially-open conformation 2
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 8gc3
Q-score: 0.344
To Be Published
- (2s,3s,4s)-2-carboxy-4-[(1z,3e,5r)-5-carboxy-1-methyl-1,3-hexadienyl]-3-pyrrolidineacetic acid (311 Da, Ligand)
- Glutamate receptor ionotropic, kainate 2 (98 kDa, Protein from Rattus norvegicus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Homotetrameric gluk2 bound with doq state 1 (Complex from Rattus norvegicus)
Domoate-bound GluK2 kainate receptor in partially-open conformation 3
Resolution: 3.93 Å
EM Method: Single-particle
Fitted PDBs: 8gc4
Q-score: 0.327
To Be Published
- Glutamate receptor ionotropic, kainate 2 (98 kDa, Protein from Rattus norvegicus)
- Homotetrameric gluk2 bound with doq state 4 (Complex from Rattus norvegicus)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- (2s,3s,4s)-2-carboxy-4-[(1z,3e,5r)-5-carboxy-1-methyl-1,3-hexadienyl]-3-pyrrolidineacetic acid (311 Da, Ligand)
Domoate-bound GluK2 kainate receptors in non-active conformation
Resolution: 3.93 Å
EM Method: Single-particle
Fitted PDBs: 8gc5
Q-score: 0.353
To Be Published
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Homotetrameric gluk2 bound with doq state 4 (Complex from Rattus norvegicus)
- (2s,3s,4s)-2-carboxy-4-[(1z,3e,5r)-5-carboxy-1-methyl-1,3-hexadienyl]-3-pyrrolidineacetic acid (311 Da, Ligand)
- Glutamate receptor ionotropic, kainate 2 (98 kDa, Protein from Rattus norvegicus)
- Alpha-d-mannopyranose (180 Da, Ligand)
Alpha7-nicotinic acetylcholine receptor bound to epibatidine and (-)-TQS
Resolution: 2.34 Å
EM Method: Single-particle
Fitted PDBs: 8v80
Q-score: 0.65
Burke SM, Avstrikova M, Noviello CM, Mukhtasimova N, Changeux JP, Thakur GA, Sine SM, Cecchini M, Hibbs RE
Cell (2024) 187 pp. 1160-1176.e21 [ Pubmed: 38382524 DOI: doi:10.1016/j.cell.2024.01.032 ]
- (3ar,4s,9bs)-4-(naphthalen-1-yl)-3a,4,5,9b-tetrahydro-3h-cyclopenta[c]quinoline-8-sulfonamide (376 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- (3beta,14beta,17beta,25r)-3-[4-methoxy-3-(methoxymethyl)butoxy]spirost-5-en (544 Da, Ligand)
- Neuronal acetylcholine receptor subunit alpha-7,soluble cytochrome b562 (67 kDa, Protein from Homo sapiens)
- Alpha7-nicotinic acetylcholine receptor bound to epibatidine and (-)-tqs (Complex from Homo sapiens)
- Epibatidine (208 Da, Ligand)
- Water (18 Da, Ligand)
- (2s)-3-(hexadecanoyloxy)-2-[(9z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate (760 Da, Ligand)
Alpha7-nicotinic acetylcholine receptor bound to epibatidine and GAT107
Resolution: 2.3 Å
EM Method: Single-particle
Fitted PDBs: 8v88
Q-score: 0.681
Burke SM, Avstrikova M, Noviello CM, Mukhtasimova N, Changeux JP, Thakur GA, Sine SM, Cecchini M, Hibbs RE
Cell (2024) 187 pp. 1160-1176.e21 [ Pubmed: 38382524 DOI: doi:10.1016/j.cell.2024.01.032 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- (3beta,14beta,17beta,25r)-3-[4-methoxy-3-(methoxymethyl)butoxy]spirost-5-en (544 Da, Ligand)
- (3ar,4s,9bs)-4-(4-bromophenyl)-3a,4,5,9b-tetrahydro-3h-cyclopenta[c]quinoline-8-sulfonamide (405 Da, Ligand)
- Neuronal acetylcholine receptor subunit alpha-7,soluble cytochrome b562 (67 kDa, Protein from Homo sapiens)
- Epibatidine (208 Da, Ligand)
- Alpha7-nicotinic acetylcholine receptor bound to epibatidine and gat107 (Complex from Homo sapiens)
- Water (18 Da, Ligand)
- (2s)-3-(hexadecanoyloxy)-2-[(9z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate (760 Da, Ligand)
Full-length mouse 5-HT3A receptor in complex with SMP100, pre-activated
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8frx
Q-score: 0.533
Felt K, Stauffer M, Salas-Estrada L, Guzzo PR, Xie D, Huang J, Filizola M, Chakrapani S
Nat Struct Mol Biol (2024) 31 pp. 598-609 [ Pubmed: 38177669 DOI: doi:10.1038/s41594-023-01140-2 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 5-ht3a pentamer in complex with orthosteric ligand smp100 (331 kDa, Complex from Mus musculus)
- 5-hydroxytryptamine receptor 3a (62 kDa, Protein from Mus musculus)
- 5-[(1r,3s,4r)-1-azabicyclo[2.2.2]octan-3-yl]-1,3,4,5-tetrahydro-6h-azepino[5,4,3-cd]indazol-6-one (296 Da, Ligand)