Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 7qn5
Q-score: 0.58
Sente A, Desai R, Naydenova K, Malinauskas T, Jounaidi Y, Miehling J, Zhou X, Masiulis S, Hardwick SW, Chirgadze DY, Miller KW, Aricescu AR
Nature (2022) 604 pp. 190-194 [ Pubmed: 35355020 DOI: doi:10.1038/s41586-022-04517-3 ]
- 1,2-dipalmitoyl-sn-glycero-3-phosphate (647 Da, Ligand)
- Gamma-aminobutyric acid receptor subunit beta-3 (54 kDa, Protein from Homo sapiens)
- Nanobody nb25 (13 kDa, Protein from Lama glama)
- Human full-length extrasynaptic alpha4beta3delta gaba(a)r in complex with nanobody nb25 (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Gamma-aminobutyric acid receptor subunit alpha-4 (61 kDa, Protein from Homo sapiens)
- 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid (238 Da, Ligand)
- Decane (142 Da, Ligand)
- N-octane (114 Da, Ligand)
- Gamma-aminobutyric acid receptor subunit delta (52 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Chloride ion (35 Da, Ligand)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 7qn9
Q-score: 0.505
Sente A, Desai R, Naydenova K, Malinauskas T, Jounaidi Y, Miehling J, Zhou X, Masiulis S, Hardwick SW, Chirgadze DY, Miller KW, Aricescu AR
Nature (2022) 604 pp. 190-194 [ Pubmed: 35355020 DOI: doi:10.1038/s41586-022-04517-3 ]
- Gamma-aminobutyric acid receptor subunit beta-3 (54 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Gamma-aminobutyric acid receptor subunit alpha-4 (61 kDa, Protein from Homo sapiens)
- Histamine (111 Da, Ligand)
- Hexadecane (226 Da, Ligand)
- Human full-length extrasynaptic alpha4beta3delta gaba(a)r in complex with histamine and nanobody nb25 (Complex from Homo sapiens)
- Decane (142 Da, Ligand)
- Gamma-aminobutyric acid receptor subunit delta (52 kDa, Protein from Homo sapiens)
- Nanobody nb25 (13 kDa, Protein from Homo sapiens)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 7qnc
Q-score: 0.523
Sente A, Desai R, Naydenova K, Malinauskas T, Jounaidi Y, Miehling J, Zhou X, Masiulis S, Hardwick SW, Chirgadze DY, Miller KW, Aricescu AR
Nature (2022) 604 pp. 190-194 [ Pubmed: 35355020 DOI: doi:10.1038/s41586-022-04517-3 ]
- Gamma-aminobutyric acid receptor subunit beta-3 (54 kDa, Protein from Homo sapiens)
- Nanobody nb25 (13 kDa, Protein from Lama glama)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Human full-length extrasynaptic alpha4beta3delta gaba(a)r in complex with thip (gaboxadol), histamine and nanobody nb25 (Complex from Homo sapiens)
- Gamma-aminobutyric acid receptor subunit alpha-4 (61 kDa, Protein from Homo sapiens)
- Histamine (111 Da, Ligand)
- Decane (142 Da, Ligand)
- Gamma-aminobutyric acid receptor subunit delta (52 kDa, Protein from Homo sapiens)
- 4,5,6,7-tetrahydro-[1,2]oxazolo[5,4-c]pyridin-3-one (140 Da, Ligand)
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 7qne
Q-score: 0.606
Sente A, Desai R, Naydenova K, Malinauskas T, Jounaidi Y, Miehling J, Zhou X, Masiulis S, Hardwick SW, Chirgadze DY, Miller KW, Aricescu AR
Nature (2022) 604 pp. 190-194 [ Pubmed: 35355020 DOI: doi:10.1038/s41586-022-04517-3 ]
- Gamma-aminobutyric acid receptor subunit beta-3 (54 kDa, Protein from Homo sapiens)
- Megabody mb38 (13 kDa, Protein from Lama glama)
- [(2r)-2-octanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate (746 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Ethyl 8-[(azanylidene-$l^{4}-azanylidene)amino]-5-methyl-6-oxidanylidene-4~{h}-imidazo[1,5-a][1,4]benzodiazepine-3-carboxylate (326 Da, Ligand)
- Gaba(a) receptor subunit gamma-2 (56 kDa, Protein from Homo sapiens)
- Decane (142 Da, Ligand)
- N-octane (114 Da, Ligand)
- Gaba(a) receptor subunit alpha-1 (51 kDa, Protein from Homo sapiens)
- Human full-length synaptic alpha1beta3gamma2 gaba(a)r in complex with ro15-4513 and megabody mb38 (Complex from Homo sapiens)
- Chloride ion (35 Da, Ligand)
Transport protein in an occluded state
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 7m5v
Q-score: 0.49
Tillinghast J, Drury S, Bowser D, Benn A, Lee KPK
Mol Cell (2021) 81 pp. 4650-4662.e4 [ Pubmed: 34715014 DOI: doi:10.1016/j.molcel.2021.10.002 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Water (18 Da, Ligand)
- Polyamine-transporting atpase 13a2 (129 kDa, Protein from Homo sapiens)
- (2r)-3-{[(s)-hydroxy{[(1s,2r,3r,4s,5s,6r)-2,4,6-trihydroxy-3,5-bis(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dioctanoate (746 Da, Ligand)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Decane (142 Da, Ligand)
- Transport protein in an occluded state (130 kDa, Complex from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- 1-dodecanol (186 Da, Ligand)
- Dodecane (170 Da, Ligand)
Transport protein in inhibited state 1
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 7m5x
Q-score: 0.484
Tillinghast J, Drury S, Bowser D, Benn A, Lee KPK
Mol Cell (2021) 81 pp. 4650-4662.e4 [ Pubmed: 34715014 DOI: doi:10.1016/j.molcel.2021.10.002 ]
- Tetradecane (198 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- (2r)-3-{[(s)-hydroxy{[(1s,2r,3r,4s,5s,6r)-2,4,6-trihydroxy-3,5-bis(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dioctanoate (746 Da, Ligand)
- Spermine (fully protonated form) (206 Da, Ligand)
- Dodecane (170 Da, Ligand)
- Polyamine-transporting atpase 13a2 (129 kDa, Protein from Homo sapiens)
- Decane (142 Da, Ligand)
- Transport protein in inhibited state 1 (130 kDa, Complex from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Beryllium trifluoride ion (66 Da, Ligand)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Water (18 Da, Ligand)
- Cholesterol (386 Da, Ligand)
Resolution: 2.14 Å
EM Method: Single-particle
Fitted PDBs: 7s4h
Q-score: 0.684
Koo CW, Tucci FJ, He Y, Rosenzweig AC
Science (2022) 375 pp. 1287-1291 [ DOI: doi:10.1126/science.abm3282 Pubmed: 35298269 ]
- Particulate methane monooxygenase alpha subunit (46 kDa, Protein from Methylococcus capsulatus str. Bath)
- Pmmo complex in a native lipid nanodisc (Complex from Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath))
- Diundecyl phosphatidyl choline (622 Da, Ligand)
- Ammonia monooxygenase/methane monooxygenase, subunit c family protein (29 kDa, Protein from Methylococcus capsulatus str. Bath)
- Particulate methane monooxygenase beta subunit (28 kDa, Protein from Methylococcus capsulatus str. Bath)
- Decane (142 Da, Ligand)
- 1,2-dihexanoyl-sn-glycero-3-phosphocholine (454 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- 1,2-didecanoyl-sn-glycero-3-phosphocholine (566 Da, Ligand)
- Water (18 Da, Ligand)
Resolution: 2.26 Å
EM Method: Single-particle
Fitted PDBs: 7s4i
Q-score: 0.679
Koo CW, Tucci FJ, He Y, Rosenzweig AC
Science (2022) 375 pp. 1287-1291 [ DOI: doi:10.1126/science.abm3282 Pubmed: 35298269 ]
- Particulate methane monooxygenase alpha subunit (46 kDa, Protein from Methylococcus capsulatus str. Bath)
- Pmmo complex in a native lipid nanodisc (Complex from Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath))
- Diundecyl phosphatidyl choline (622 Da, Ligand)
- Ammonia monooxygenase/methane monooxygenase, subunit c family protein (29 kDa, Protein from Methylococcus capsulatus str. Bath)
- Particulate methane monooxygenase beta subunit (28 kDa, Protein from Methylococcus capsulatus str. Bath)
- Decane (142 Da, Ligand)
- 1,2-dihexanoyl-sn-glycero-3-phosphocholine (454 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- 1,2-didecanoyl-sn-glycero-3-phosphocholine (566 Da, Ligand)
- Water (18 Da, Ligand)
Resolution: 2.16 Å
EM Method: Single-particle
Fitted PDBs: 7s4j
Q-score: 0.66
Koo CW, Tucci FJ, He Y, Rosenzweig AC
Science (2022) 375 pp. 1287-1291 [ DOI: doi:10.1126/science.abm3282 Pubmed: 35298269 ]
- Particulate methane monooxygenase alpha subunit (46 kDa, Protein from Methylococcus capsulatus str. Bath)
- Pmmo complex in a native lipid nanodisc (Complex from Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath))
- Diundecyl phosphatidyl choline (622 Da, Ligand)
- Ammonia monooxygenase/methane monooxygenase, subunit c family protein (29 kDa, Protein from Methylococcus capsulatus str. Bath)
- Particulate methane monooxygenase beta subunit (28 kDa, Protein from Methylococcus capsulatus str. Bath)
- Decane (142 Da, Ligand)
- 1,2-dihexanoyl-sn-glycero-3-phosphocholine (454 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- 1,2-didecanoyl-sn-glycero-3-phosphocholine (566 Da, Ligand)
- Water (18 Da, Ligand)
Resolution: 2.36 Å
EM Method: Single-particle
Fitted PDBs: 7s4k
Q-score: 0.636
Koo CW, Tucci FJ, He Y, Rosenzweig AC
Science (2022) 375 pp. 1287-1291 [ DOI: doi:10.1126/science.abm3282 Pubmed: 35298269 ]
- Particulate methane monooxygenase alpha subunit (46 kDa, Protein from Methylococcus capsulatus str. Bath)
- Pmmo complex in a native lipid nanodisc (Complex from Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath))
- Diundecyl phosphatidyl choline (622 Da, Ligand)
- Ammonia monooxygenase/methane monooxygenase, subunit c family protein (29 kDa, Protein from Methylococcus capsulatus str. Bath)
- Particulate methane monooxygenase beta subunit (28 kDa, Protein from Methylococcus capsulatus str. Bath)
- Decane (142 Da, Ligand)
- 1,2-dihexanoyl-sn-glycero-3-phosphocholine (454 Da, Ligand)
- Copper (ii) ion (63 Da, Ligand)
- 1,2-didecanoyl-sn-glycero-3-phosphocholine (566 Da, Ligand)
- Water (18 Da, Ligand)