Resolution: 2.81 Å
EM Method: Single-particle
Fitted PDBs: 9dxq
Q-score: 0.512
Gangwar SP, Yelshanskaya MV, Aktolun M, Yen LY, Newton TP, Stromgaard K, Kurnikova MG, Sobolevsky AI
Nat Commun (2024) 15 pp. 10257-10257 [ DOI: doi:10.1038/s41467-024-54538-x Pubmed: 39592599 ]
- N-{7-[(4-aminobutyl)amino]heptyl}-nalpha-butanoyl-d-tyrosinamide (434 Da, Ligand)
- Sodium ion (22 Da, Ligand)
- Ligand-binding and transmembrane domains of kainate receptor gluk2 in complex with positive allosteric modulator bpam-344 and channel blocker philanthotoxin-74 (Complex from Rattus norvegicus)
- Glutamate receptor ionotropic, kainate 2 (102 kDa, Protein from Rattus norvegicus)
- Cholesterol (386 Da, Ligand)
- Chloride ion (35 Da, Ligand)
- 4-cyclopropyl-7-fluoro-3,4-dihydro-2h-1,2,4-benzothiadiazine 1,1-dioxide (242 Da, Ligand)
- (2s)-3-(hexadecanoyloxy)-2-[(9z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate (760 Da, Ligand)
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 9dxr
Q-score: 0.462
Gangwar SP, Yelshanskaya MV, Aktolun M, Yen LY, Newton TP, Stromgaard K, Kurnikova MG, Sobolevsky AI
Nat Commun (2024) 15 pp. 10257-10257 [ DOI: doi:10.1038/s41467-024-54538-x Pubmed: 39592599 ]
- Ligand-binding and transmembrane domains of kainate receptor gluk2 in complex with positive allosteric modulator bpam-344 and channel blocker nephilatoxin-8 (Complex from Rattus norvegicus)
- N~1~-{5-[(n-{4-[(3-aminopropyl)amino]butyl}-beta-alanyl)amino]pentyl}-n~2~-[(1h-indol-3-yl)acetyl]-d-aspartamide (572 Da, Ligand)
- Glutamate receptor ionotropic, kainate 2 (102 kDa, Protein from Rattus norvegicus)
- 4-cyclopropyl-7-fluoro-3,4-dihydro-2h-1,2,4-benzothiadiazine 1,1-dioxide (242 Da, Ligand)
- (2s)-3-(hexadecanoyloxy)-2-[(9z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate (760 Da, Ligand)
Resolution: 3.55 Å
EM Method: Single-particle
Fitted PDBs: 9dxs
Q-score: 0.439
Gangwar SP, Yelshanskaya MV, Aktolun M, Yen LY, Newton TP, Stromgaard K, Kurnikova MG, Sobolevsky AI
Nat Commun (2024) 15 pp. 10257-10257 [ DOI: doi:10.1038/s41467-024-54538-x Pubmed: 39592599 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Ligand-binding and transmembrane domains of kainate receptor gluk2 in complex with positive allosteric modulator bpam-344 and channel blocker spermine (Complex from Rattus norvegicus)
- Spermine (202 Da, Ligand)
- Glutamate receptor ionotropic, kainate 2 (102 kDa, Protein from Rattus norvegicus)
- Cholesterol (386 Da, Ligand)
- 4-cyclopropyl-7-fluoro-3,4-dihydro-2h-1,2,4-benzothiadiazine 1,1-dioxide (242 Da, Ligand)
- (2s)-3-(hexadecanoyloxy)-2-[(9z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate (760 Da, Ligand)
Resolution: 3.75 Å
EM Method: Single-particle
Fitted PDBs: 9dxt
Q-score: 0.385
Gangwar SP, Yelshanskaya MV, Aktolun M, Yen LY, Newton TP, Stromgaard K, Kurnikova MG, Sobolevsky AI
Nat Commun (2024) 15 pp. 10257-10257 [ DOI: doi:10.1038/s41467-024-54538-x Pubmed: 39592599 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- N,n'-[butane-1,4-diylbis(azanediylpropane-3,1-diyl)]bis[3-(3,4-dihydroxyphenyl)propanamide] (530 Da, Ligand)
- Glutamate receptor ionotropic, kainate 2 (102 kDa, Protein from Rattus norvegicus)
- 1-deoxy-alpha-d-mannopyranose (164 Da, Ligand)
- Ligand-binding and transmembrane domains of kainate receptor gluk2 in complex with positive allosteric modulator bpam-344 and channel blocker kukoamine-a (Complex from Rattus norvegicus)
- Cholesterol (386 Da, Ligand)
- 4-cyclopropyl-7-fluoro-3,4-dihydro-2h-1,2,4-benzothiadiazine 1,1-dioxide (242 Da, Ligand)
- (2s)-3-(hexadecanoyloxy)-2-[(9z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate (760 Da, Ligand)
Gangwar SP, Yelshanskaya MV, Nadezhdin KD, Yen LY, Newton TP, Aktolun M, Kurnikova MG, Sobolevsky AI
Nature (2024) 630 pp. 762-768 [ Pubmed: 38778115 DOI: doi:10.1038/s41586-024-07475-0 ]
Gangwar SP, Yelshanskaya MV, Nadezhdin KD, Yen LY, Newton TP, Aktolun M, Kurnikova MG, Sobolevsky AI
Nature (2024) 630 pp. 762-768 [ Pubmed: 38778115 DOI: doi:10.1038/s41586-024-07475-0 ]
- Concanavalin a (Complex from Canavalia ensiformis)
- Glutamate receptor ionotropic, kainate 2 (Complex from Rattus norvegicus)
- Glutamate ionotropic receptor kainate type subunit 2 (Protein from Rattus norvegicus)
- Full-length rat gluk2 tetramer in complex with two concanavalin a dimers (510 kDa, Complex)
Gangwar SP, Yelshanskaya MV, Nadezhdin KD, Yen LY, Newton TP, Aktolun M, Kurnikova MG, Sobolevsky AI
Nature (2024) 630 pp. 762-768 [ Pubmed: 38778115 DOI: doi:10.1038/s41586-024-07475-0 ]
- Concanavalin a (Complex from Canavalia ensiformis)
- Glutamate receptor ionotropic, kainate 2 (Complex from Rattus norvegicus)
- Full-length rat gluk2 tetramer in complex with one concanavalin a homodimer (460 kDa, Complex)
- Glutamate ionotropic receptor kainate type subunit 2 (Protein from Rattus norvegicus)
Resolution: 4.07 Å
EM Method: Single-particle
Fitted PDBs: 9b33
Q-score: 0.265
Gangwar SP, Yelshanskaya MV, Nadezhdin KD, Yen LY, Newton TP, Aktolun M, Kurnikova MG, Sobolevsky AI
Nature (2024) 630 pp. 762-768 [ Pubmed: 38778115 DOI: doi:10.1038/s41586-024-07475-0 ]
- Concanavalin-a dimer (50 kDa, Complex from Canavalia ensiformis)
- Zinc ion (65 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Concanavalin v (25 kDa, Protein from Canavalia ensiformis)
Resolution: 3.58 Å
EM Method: Single-particle
Fitted PDBs: 9b34
Q-score: 0.361
Gangwar SP, Yelshanskaya MV, Nadezhdin KD, Yen LY, Newton TP, Aktolun M, Kurnikova MG, Sobolevsky AI
Nature (2024) 630 pp. 762-768 [ Pubmed: 38778115 DOI: doi:10.1038/s41586-024-07475-0 ]
- Concanavalin-a dimer (50 kDa, Complex from Canavalia ensiformis)
- Concanavalin a (25 kDa, Protein from Canavalia ensiformis)
- Calcium ion (40 Da, Ligand)
- Zinc ion (65 Da, Ligand)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 9b35
Q-score: 0.44
Gangwar SP, Yelshanskaya MV, Nadezhdin KD, Yen LY, Newton TP, Aktolun M, Kurnikova MG, Sobolevsky AI
Nature (2024) 630 pp. 762-768 [ Pubmed: 38778115 DOI: doi:10.1038/s41586-024-07475-0 ]
- Glutamic acid (147 Da, Ligand)
- Full-length rat gluk2 tetramer (410 kDa, Complex from Rattus norvegicus)
- Glutamate receptor ionotropic, kainate 2 (102 kDa, Protein from Rattus norvegicus)