Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 9jm0
Q-score: 0.492
Wang Y, Wang C, Guan Z, Cao J, Xu J, Wang S, Cui Y, Wang Q, Chen Y, Yin Y, Zhang D, Liu H, Sun M, Jin S, Tao P, Zou T
Cell Rep (2024) 43 pp. 114857-114857 [ DOI: doi:10.1016/j.celrep.2024.114857 Pubmed: 39395169 ]
- Retron ec86-effector fiber (Complex from Escherichia coli)
- [(2r,3s,4r,5r)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl [hydroxy-[[(2r,3s,4r,5s)-3,4,5-trihydroxyoxolan-2-yl]methoxy]phosphoryl] hydrogen phosphate (559 Da, Ligand)
- Dna (85-mer) (26 kDa, DNA from Escherichia coli)
- Rna (82-mer) (26 kDa, RNA from Escherichia coli)
- Retron ec86 putative ribosyltransferase/dna-binding protein (35 kDa, Protein from Escherichia coli)
- Retron ec86 reverse transcriptase (37 kDa, Protein from Escherichia coli)
- Nicotinamide (122 Da, Ligand)
- Rna (5'-r(p*cp*gp*up*ap*ap*gp*gp*gp*up*gp*cp*gp*cp*a)-3') (4 kDa, RNA from Escherichia coli)
Turret of Haloferax tailed virus 1
Resolution: 2.36 Å
EM Method: Single-particle
Fitted PDBs: 8qpg
Q-score: 0.588
Zhang D, Daum B, Isupov MN, McLaren M, Oksanen H, Quax TEF, Schwarzer S, Gold VAM, Antson A
To Be Published
- Prokaryotic polysaccharide deacetylase (45 kDa, Protein from Haloferax tailed virus 1)
- Gp30 (12 kDa, Protein from Haloferax tailed virus 1)
- Magnesium ion (24 Da, Ligand)
- Haloferax tailed virus 1 (Virus from Haloferax tailed virus 1)
- Zinc ion (65 Da, Ligand)
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8qpq
Q-score: 0.538
Zhang D, Daum B, Isupov MN, McLaren M, Oksanen H, Quax TEF, Schwarzer S, Gold VAM, Antson A
To Be Published
- Prokaryotic polysaccharide deacetylase (45 kDa, Protein from Haloferax tailed virus 1)
- Gp30 (12 kDa, Protein from Haloferax tailed virus 1)
- Magnesium ion (24 Da, Ligand)
- Hk97 gp5-like major capsid protein (43 kDa, Protein from Haloferax tailed virus 1)
- Haloferax tailed virus 1 (Virus from Haloferax tailed virus 1)
- Zinc ion (65 Da, Ligand)
Complex of NPR1 ectodomain with ANP plus an allosteric activating antibody, REGN5381
Resolution: 3.08 Å
EM Method: Single-particle
Fitted PDBs: 8tg9
Q-score: 0.495
Dunn ME, Kithcart A, Kim JH, Ho AJ, Franklin MC, Romero Hernandez A, de Hoon J, Botermans W, Meyer J, Jin X, Zhang D, Torello J, Jasewicz D, Kamat V, Garnova E, Liu N, Rosconi M, Pan H, Karnik S, Burczynski ME, Zheng W, Rafique A, Nielsen JB, De T, Verweij N, Pandit A, Locke A, Chalasani N, Melander O, Schwantes-An TH, Baras A, Lotta LA, Musser BJ, Mastaitis J, Devalaraja-Narashimha KB, Rankin AJ, Huang T, Herman G, Olson W, Murphy AJ, Yancopoulos GD, Olenchock BA, Morton L
Nature (2024) 633 pp. 654-661 [ Pubmed: 39261724 DOI: doi:10.1038/s41586-024-07903-1 ]
- Regn5381 fab heavy chain (24 kDa, Protein from Mus musculus)
- Regn5381 fab light chain (23 kDa, Protein from Mus musculus)
- Active complex of npr1 ectodomain, anp, and regn5381 fab (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Atrial natriuretic peptide (3 kDa, Protein from Homo sapiens)
- Atrial natriuretic peptide receptor 1 (52 kDa, Protein from Homo sapiens)
PGF2-alpha bound Prostaglandin F2-alpha receptor-Gq Protein Complex
Resolution: 2.77 Å
EM Method: Single-particle
Fitted PDBs: 8xjl
Q-score: 0.559
Li X, Zhang X, Wen X, Zhang D, Qu C, Miao X, Zhang W, Zhang R, Liu G, Xiao P, Sun JP, Gong W
Cell Rep (2024) 43 pp. 113893-113893 [ DOI: doi:10.1016/j.celrep.2024.113893 Pubmed: 38446662 ]
- Fusion tag,prostaglandin f2-alpha receptor,lgbit (64 kDa, Protein from synthetic construct)
- (z)-7-[(1r,2r,3r,5s)-3,5-bis(oxidanyl)-2-[(e,3s)-3-oxidanyloct-1-enyl]cyclopentyl]hept-5-enoic acid (354 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Antibody fragment scfv16 (27 kDa, Protein from synthetic construct)
- Pgf2-alpha-fp-minigq-scfv16 complex (Complex from Homo sapiens)
- Engineered minigq (28 kDa, Protein from synthetic construct)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (40 kDa, Protein from Homo sapiens)
Latanoprost acid bound Prostaglandin F2-alpha receptor-Gq Protein Complex
Resolution: 2.85 Å
EM Method: Single-particle
Fitted PDBs: 8xjm
Q-score: 0.555
Li X, Zhang X, Wen X, Zhang D, Qu C, Miao X, Zhang W, Zhang R, Liu G, Xiao P, Sun JP, Gong W
Cell Rep (2024) 43 pp. 113893-113893 [ DOI: doi:10.1016/j.celrep.2024.113893 Pubmed: 38446662 ]
- Fusion tag,prostaglandin f2-alpha receptor,lgbit (64 kDa, Protein from synthetic construct)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Antibody fragment scfv16 (27 kDa, Protein from synthetic construct)
- Engineered minigq (28 kDa, Protein from synthetic construct)
- Z-7-[(1r,2r,3r,5s)-3,5-bis(oxidanyl)-2-[(3r)-3-oxidanyl-5-phenyl-pentyl]cyclopentyl]hept-5-enoic acid (390 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (40 kDa, Protein from Homo sapiens)
- Latanoprost acid-fp-minigq-scfv16 complex (Complex from Homo sapiens)
U46619 bound Thromboxane A2 receptor-Gq Protein Complex
Resolution: 3.11 Å
EM Method: Single-particle
Fitted PDBs: 8xjo
Q-score: 0.493
Li X, Zhang X, Wen X, Zhang D, Qu C, Miao X, Zhang W, Zhang R, Liu G, Xiao P, Sun JP, Gong W
Cell Rep (2024) 43 pp. 113893-113893 [ DOI: doi:10.1016/j.celrep.2024.113893 Pubmed: 38446662 ]
- Engineered minigq (28 kDa, Protein from synthetic construct)
- Antibody fragment scfv16 (27 kDa, Protein from synthetic construct)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (40 kDa, Protein from Homo sapiens)
- (5z)-7-{(1r,4s,5s,6r)-6-[(1e,3s)-3-hydroxyoct-1-en-1-yl]-2-oxabicyclo[2.2.1]hept-5-yl}hept-5-enoic acid (350 Da, Ligand)
- Fusion tag,thromboxane a2 receptor,lgbit (61 kDa, Protein from synthetic construct)
- U46619-tp-minigq-scfv16 complex (Complex from Homo sapiens)
Human gamma-secretase treated with ganglioside GM1
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8im7
Q-score: 0.483
Wang X, Zhou R, Sun X, Li J, Wang J, Yue W, Wang L, Liu H, Shi Y, Zhang D
Adv Sci (2023) 10 pp. e2303411-e2303411 [ DOI: doi:10.1002/advs.202303411 Pubmed: 37759382 ]
- Human gamma-secretase treated with ganglioside gm1 (Complex from Homo sapiens)
- Nicastrin (78 kDa, Protein from Homo sapiens)
- Gamma-secretase subunit pen-2 (12 kDa, Protein from Homo sapiens)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Cholesterol (386 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Gamma-secretase subunit aph-1a (29 kDa, Protein from Homo sapiens)
- Presenilin-1 ctf12 (52 kDa, Protein from Homo sapiens)
Active state homomeric GluA1 AMPA receptor in complex with TARP gamma 3
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8c1p
Q-score: 0.561
Zhang D, Ivica J, Krieger JM, Ho H, Yamashita K, Stockwell I, Baradaran R, Cais O, Greger IH
Nature (2023) 621 pp. 877-882 [ Pubmed: 37704721 DOI: doi:10.1038/s41586-023-06528-0 ]
- (2r)-2,3-dihydroxypropyl (9z)-octadec-9-enoate (356 Da, Ligand)
- Homomeric glua1 ampa receptor in complex with tarp gamma 3 (Complex from Rattus)
- Water (18 Da, Ligand)
- Voltage-dependent calcium channel gamma-3 subunit (35 kDa, Protein from Rattus norvegicus)
- Glutamic acid (147 Da, Ligand)
- Palmitic acid (256 Da, Ligand)
- Glutamate receptor 1 flip isoform (102 kDa, Protein from Rattus norvegicus)
- (2s)-3-(hexadecanoyloxy)-2-[(9z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate (760 Da, Ligand)
- Cyclothiazide (389 Da, Ligand)
Resting state homomeric GluA1 AMPA receptor in complex with TARP gamma 3
Resolution: 2.82 Å
EM Method: Single-particle
Fitted PDBs: 8c1q
Q-score: 0.54
Zhang D, Ivica J, Krieger JM, Ho H, Yamashita K, Stockwell I, Baradaran R, Cais O, Greger IH
Nature (2023) 621 pp. 877-882 [ Pubmed: 37704721 DOI: doi:10.1038/s41586-023-06528-0 ]
- (2r)-2,3-dihydroxypropyl (9z)-octadec-9-enoate (356 Da, Ligand)
- Homomeric glua1 ampa receptor in complex with tarp gamma 3 (Complex from Rattus)
- Water (18 Da, Ligand)
- {[7-morpholin-4-yl-2,3-dioxo-6-(trifluoromethyl)-3,4-dihydroquinoxalin-1(2h)-yl]methyl}phosphonic acid (409 Da, Ligand)
- Voltage-dependent calcium channel gamma-3 subunit (35 kDa, Protein from Rattus norvegicus)
- Palmitic acid (256 Da, Ligand)
- Glutamate receptor 1 flip isoform (102 kDa, Protein from Rattus norvegicus)
- (2s)-3-(hexadecanoyloxy)-2-[(9z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate (760 Da, Ligand)