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 [ Pubmed: 39395169 DOI: doi:10.1016/j.celrep.2024.114857 ]
- Rna (82-mer) (26 kDa, RNA from Escherichia coli)
- 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)
- Nicotinamide (122 Da, Ligand)
- Dna (85-mer) (26 kDa, DNA 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)
- Retron ec86 reverse transcriptase (37 kDa, Protein from Escherichia coli)
- Retron ec86-effector fiber (Complex from Escherichia coli)
- Retron ec86 putative ribosyltransferase/dna-binding protein (35 kDa, Protein from Escherichia coli)
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)
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8we9
Q-score: 0.47
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)
Cryo-EM structure of the RO5256390-TAAR1 complex
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8w8a
Q-score: 0.551
Liu H, Zheng Y, Wang Y, Wang Y, He X, Xu P, Huang S, Yuan Q, Zhang X, Wang L, Jiang K, Chen H, Li Z, Liu W, Wang S, Xu HE, Xu F
Nature (2023) 624 pp. 663-671 [ Pubmed: 37935377 DOI: doi:10.1038/s41586-023-06775-1 ]
- Trace amine-associated receptor 1 (39 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Nanobody35 (15 kDa, Protein from Lama glama)
- Guanine nucleotide-binding protein g(s) subunit alpha isoforms short (28 kDa, Protein from Homo sapiens)
- Cryo-em structure of the ro5256390-taar1 complex (Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- (4s)-4-[(2s)-2-phenylbutyl]-1,3-oxazolidin-2-imine (218 Da, Ligand)
Cryo-EM structure of unprotonated LHCII in detergent solution at high pH value
Resolution: 2.59 Å
EM Method: Single-particle
Fitted PDBs: 8iwx
Q-score: 0.466
Ruan M, Li H, Zhang Y, Zhao R, Zhang J, Wang Y, Gao J, Wang Z, Wang Y, Sun D, Ding W, Weng Y
Nat Plants (2023) 9 pp. 1547-1557 [ DOI: doi:10.1038/s41477-023-01500-2 Pubmed: 37653340 ]
- (1r,3r)-6-{(3e,5e,7e,9e,11e,13e,15e,17e)-18-[(1s,4r,6r)-4-hydroxy-2,2,6-trimethyl-7-oxabicyclo[4.1.0]hept-1-yl]-3,7,12,16-tetramethyloctadeca-1,3,5,7,9,11,13,15,17-nonaenylidene}-1,5,5-trimethylcyclohexane-1,3-diol (600 Da, Ligand)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (23 kDa, Protein from Spinacia oleracea)
- (3s,5r,6s,3's,5'r,6's)-5,6,5',6'-diepoxy-5,6,5',6'- tetrahydro-beta,beta-carotene-3,3'-diol (600 Da, Ligand)
- Chlorophyll b (907 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Lhcii in detergent solution at high ph value (120 kDa, Complex from Spinacia oleracea)
Cryo-EM structure of protonated LHCII in detergent solution at low pH value
Resolution: 2.68 Å
EM Method: Single-particle
Fitted PDBs: 8iwy
Q-score: 0.572
Ruan M, Li H, Zhang Y, Zhao R, Zhang J, Wang Y, Gao J, Wang Z, Wang Y, Sun D, Ding W, Weng Y
Nat Plants (2023) 9 pp. 1547-1557 [ DOI: doi:10.1038/s41477-023-01500-2 Pubmed: 37653340 ]
- (1r,3r)-6-{(3e,5e,7e,9e,11e,13e,15e,17e)-18-[(1s,4r,6r)-4-hydroxy-2,2,6-trimethyl-7-oxabicyclo[4.1.0]hept-1-yl]-3,7,12,16-tetramethyloctadeca-1,3,5,7,9,11,13,15,17-nonaenylidene}-1,5,5-trimethylcyclohexane-1,3-diol (600 Da, Ligand)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (23 kDa, Protein from Spinacia oleracea)
- (3s,5r,6s,3's,5'r,6's)-5,6,5',6'-diepoxy-5,6,5',6'- tetrahydro-beta,beta-carotene-3,3'-diol (600 Da, Ligand)
- Chlorophyll b (907 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Lhcii in detergent solution at low ph value (120 kDa, Complex from Spinacia oleracea)
Cryo-EM structure of unprotonated LHCII in detergent solution at low pH value
Resolution: 2.52 Å
EM Method: Single-particle
Fitted PDBs: 8iwz
Q-score: 0.563
Ruan M, Li H, Zhang Y, Zhao R, Zhang J, Wang Y, Gao J, Wang Z, Wang Y, Sun D, Ding W, Weng Y
Nat Plants (2023) 9 pp. 1547-1557 [ DOI: doi:10.1038/s41477-023-01500-2 Pubmed: 37653340 ]
- (1r,3r)-6-{(3e,5e,7e,9e,11e,13e,15e,17e)-18-[(1s,4r,6r)-4-hydroxy-2,2,6-trimethyl-7-oxabicyclo[4.1.0]hept-1-yl]-3,7,12,16-tetramethyloctadeca-1,3,5,7,9,11,13,15,17-nonaenylidene}-1,5,5-trimethylcyclohexane-1,3-diol (600 Da, Ligand)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (23 kDa, Protein from Spinacia oleracea)
- (3s,5r,6s,3's,5'r,6's)-5,6,5',6'-diepoxy-5,6,5',6'- tetrahydro-beta,beta-carotene-3,3'-diol (600 Da, Ligand)
- Chlorophyll b (907 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Lhcii in detergent solution at low ph value (120 kDa, Complex from Spinacia oleracea)
Cryo-EM structure of unprotonated LHCII nanodisc at high pH value
Resolution: 2.64 Å
EM Method: Single-particle
Fitted PDBs: 8ix0
Q-score: 0.541
Ruan M, Li H, Zhang Y, Zhao R, Zhang J, Wang Y, Gao J, Wang Z, Wang Y, Sun D, Ding W, Weng Y
Nat Plants (2023) 9 pp. 1547-1557 [ DOI: doi:10.1038/s41477-023-01500-2 Pubmed: 37653340 ]
- (1r,3r)-6-{(3e,5e,7e,9e,11e,13e,15e,17e)-18-[(1s,4r,6r)-4-hydroxy-2,2,6-trimethyl-7-oxabicyclo[4.1.0]hept-1-yl]-3,7,12,16-tetramethyloctadeca-1,3,5,7,9,11,13,15,17-nonaenylidene}-1,5,5-trimethylcyclohexane-1,3-diol (600 Da, Ligand)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (23 kDa, Protein from Spinacia oleracea)
- (3s,5r,6s,3's,5'r,6's)-5,6,5',6'-diepoxy-5,6,5',6'- tetrahydro-beta,beta-carotene-3,3'-diol (600 Da, Ligand)
- Chlorophyll b (907 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Lhcii nanodsic at high ph value (120 kDa, Complex from Spinacia oleracea)
Cryo-EM structure of protonated LHCII nanodisc at low pH value
Resolution: 2.63 Å
EM Method: Single-particle
Fitted PDBs: 8ix1
Q-score: 0.526
Ruan M, Li H, Zhang Y, Zhao R, Zhang J, Wang Y, Gao J, Wang Z, Wang Y, Sun D, Ding W, Weng Y
Nat Plants (2023) 9 pp. 1547-1557 [ DOI: doi:10.1038/s41477-023-01500-2 Pubmed: 37653340 ]
- (1r,3r)-6-{(3e,5e,7e,9e,11e,13e,15e,17e)-18-[(1s,4r,6r)-4-hydroxy-2,2,6-trimethyl-7-oxabicyclo[4.1.0]hept-1-yl]-3,7,12,16-tetramethyloctadeca-1,3,5,7,9,11,13,15,17-nonaenylidene}-1,5,5-trimethylcyclohexane-1,3-diol (600 Da, Ligand)
- (3r,3'r,6s)-4,5-didehydro-5,6-dihydro-beta,beta-carotene-3,3'-diol (568 Da, Ligand)
- Chlorophyll a-b binding protein, chloroplastic (23 kDa, Protein from Spinacia oleracea)
- (3s,5r,6s,3's,5'r,6's)-5,6,5',6'-diepoxy-5,6,5',6'- tetrahydro-beta,beta-carotene-3,3'-diol (600 Da, Ligand)
- Chlorophyll b (907 Da, Ligand)
- 1,2-dipalmitoyl-phosphatidyl-glycerole (722 Da, Ligand)
- Chlorophyll a (893 Da, Ligand)
- Lhcii nanodsic at low ph value (120 kDa, Complex from Spinacia)