Cryo-EM structure of photosynthetic LH1-RC core complex of Roseospirillum parvum
Resolution: 2.65 Å
EM Method: Single-particle
Fitted PDBs: 8zk2
Q-score: 0.637
Wang XP, Wang GL, Fu Y, Minamino A, Zou MJ, Ma F, Xu B, Wang-Otomo ZY, Kimura Y, Madigan MT, Overmann J, Yu LJ
Commun Biol (2024) 7 pp. 1658-1658 [ DOI: doi:10.1038/s42003-024-07354-4 Pubmed: 39702771 ]
- Beta subunit of light-harvesting 1 complex (7 kDa, Protein from Roseospirillum parvum)
- Photosynthetic reaction center h subunit (27 kDa, Protein from Roseospirillum parvum)
- Magnesium ion (24 Da, Ligand)
- Alpha subunit of light-harvesting 1 complex (7 kDa, Protein from Roseospirillum parvum)
- Spirilloxanthin (596 Da, Ligand)
- Photosynthetic reaction center cytochrome c subunit (39 kDa, Protein from Roseospirillum parvum)
- Bacteriochlorophyll a (911 Da, Ligand)
- Menaquinone 8 (717 Da, Ligand)
- Reaction center protein l chain (30 kDa, Protein from Roseospirillum parvum)
- Reaction center protein m chain (35 kDa, Protein from Roseospirillum parvum)
- Bacteriopheophytin a (889 Da, Ligand)
- (1r)-2-{[{[(2s)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoyloxy)methyl]ethyl (11e)-octadec-11-enoate (749 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Lh1-rc core complex (Complex from Roseospirillum parvum)
- Octadecane (254 Da, Ligand)
- Heme c (618 Da, Ligand)
- Fe (iii) ion (55 Da, Ligand)
CryoEM structure of influenza A RNP-like particle single-stranded assembled with a 12-mer RNA.
Resolution: 3.32 Å
EM Method: Helical reconstruction
Fitted PDBs: 9gan
Q-score: 0.493
Chenavier F, Zarkadas E, Freslon LL, Stelfox AJ, Schoehn G, Ruigrok RWH, Ballandras-Colas A, Crepin T
Nucleic Acids Res (2025) 53 [ DOI: doi:10.1093/nar/gkae1211 Pubmed: 39673795 ]
- Rna (5'-p(uc)6-fam3') (3 kDa, RNA from synthetic construct)
- Complex np-rna (Complex from Influenza A virus)
- Nucleoprotein (56 kDa, Protein from Influenza A virus)
- 2-[3,6-bis(oxidanylidene)-4,5-dihydroxanthen-9-yl]-4-[3-[(2r)-2-oxidanylpropoxy]propylcarbamoyl]benzoic acid (493 Da, Ligand)
CryoEM structure of influenza A RNP-like particle double-stranded assembled with a 12-mer RNA.
Resolution: 4.0 Å
EM Method: Helical reconstruction
Fitted PDBs: 9gap
Q-score: 0.303
Chenavier F, Zarkadas E, Freslon LL, Stelfox AJ, Schoehn G, Ruigrok RWH, Ballandras-Colas A, Crepin T
Nucleic Acids Res (2025) 53 [ DOI: doi:10.1093/nar/gkae1211 Pubmed: 39673795 ]
- Complex np-rna (Complex)
- Nucleoprotein (56 kDa, Protein from Influenza A virus)
- Rna (5'-p(uc)6-fam3') (3 kDa, RNA from synthetic construct)
- Rna (Complex from synthetic construct)
- 2-[3,6-bis(oxidanylidene)-4,5-dihydroxanthen-9-yl]-4-[3-[(2r)-2-oxidanylpropoxy]propylcarbamoyl]benzoic acid (493 Da, Ligand)
- Nucleoprotein (Complex from Influenza A virus)
Resolution: 3.08 Å
EM Method: Helical reconstruction
Fitted PDBs: 9gas
Q-score: 0.531
Chenavier F, Zarkadas E, Freslon LL, Stelfox AJ, Schoehn G, Ruigrok RWH, Ballandras-Colas A, Crepin T
Nucleic Acids Res (2025) 53 [ DOI: doi:10.1093/nar/gkae1211 Pubmed: 39673795 ]
- Complex np-rna (Complex)
- Nucleoprotein (56 kDa, Protein from Influenza A virus)
- Rna (Complex from synthetic construct)
- 2-[3,6-bis(oxidanylidene)-4,5-dihydroxanthen-9-yl]-4-[3-[(2r)-2-oxidanylpropoxy]propylcarbamoyl]benzoic acid (493 Da, Ligand)
- Rna (5'-p(uc)9-fam3') (5 kDa, RNA from synthetic construct)
- Nucleoprotein (Complex from Influenza A virus)
Resolution: 3.2 Å
EM Method: Helical reconstruction
Fitted PDBs: 9gat
Q-score: 0.437
Chenavier F, Zarkadas E, Freslon LL, Stelfox AJ, Schoehn G, Ruigrok RWH, Ballandras-Colas A, Crepin T
Nucleic Acids Res (2025) 53 [ DOI: doi:10.1093/nar/gkae1211 Pubmed: 39673795 ]
- Complex np-rna (Complex)
- Nucleoprotein (56 kDa, Protein from Influenza A virus)
- Rna (Complex from synthetic construct)
- 2-[3,6-bis(oxidanylidene)-4,5-dihydroxanthen-9-yl]-4-[3-[(2r)-2-oxidanylpropoxy]propylcarbamoyl]benzoic acid (493 Da, Ligand)
- Rna (5'-p(uc)9-fam3') (5 kDa, RNA from synthetic construct)
- Nucleoprotein (Complex from Influenza A virus)
Resolution: 3.04 Å
EM Method: Helical reconstruction
Fitted PDBs: 9gav
Q-score: 0.518
Chenavier F, Zarkadas E, Freslon LL, Stelfox AJ, Schoehn G, Ruigrok RWH, Ballandras-Colas A, Crepin T
Nucleic Acids Res (2025) 53 [ DOI: doi:10.1093/nar/gkae1211 Pubmed: 39673795 ]
- Complex np-rna (Complex)
- Nucleoprotein (56 kDa, Protein from Influenza A virus)
- Rna (Complex from synthetic construct)
- 2-[3,6-bis(oxidanylidene)-4,5-dihydroxanthen-9-yl]-4-[3-[(2r)-2-oxidanylpropoxy]propylcarbamoyl]benzoic acid (493 Da, Ligand)
- Rna (5'-p(uc)9-fam3') (5 kDa, RNA from synthetic construct)
- Nucleoprotein (Complex from Influenza A virus)
Cryo-EM structure of the apo yeast Ceramide Synthase
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8qtn
Q-score: 0.513
Schafer JH, Clausmeyer L, Korner C, Esch BM, Wolf VN, Sapia J, Ahmed Y, Walter S, Vanni S, Januliene D, Moeller A, Frohlich F
Nat Struct Mol Biol (2024) [ Pubmed: 39528796 DOI: doi:10.1038/s41594-024-01415-2 ]
- Ceramide synthase subunit lip1 (15 kDa, Protein from Saccharomyces cerevisiae)
- Ceramide synthase lag1 (37 kDa, Protein from Saccharomyces cerevisiae)
- [(2s)-1-hexadecanoyloxy-3-[hydroxy-[(2s,3r,5s,6r)-2,3,4,5,6-pentahydroxycyclohexyl]oxy-phosphoryl]oxy-propan-2-yl] heptadecanoate (825 Da, Ligand)
- Ceramide synthase lac1 (36 kDa, Protein from Saccharomyces cerevisiae)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Ammonium ion (18 Da, Ligand)
- Hexacosanoic acid (396 Da, Ligand)
- Heterotetrameric complex of yeast ceramide synthase with lag1, lac1 and lip1 (140 kDa, Complex from Saccharomyces cerevisiae)
Cryo-EM structure of the FB-bound yeast Ceramide Synthase
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8qtr
Q-score: 0.464
Schafer JH, Clausmeyer L, Korner C, Esch BM, Wolf VN, Sapia J, Ahmed Y, Walter S, Vanni S, Januliene D, Moeller A, Frohlich F
Nat Struct Mol Biol (2024) [ Pubmed: 39528796 DOI: doi:10.1038/s41594-024-01415-2 ]
- Ceramide synthase lac1 (35 kDa, Protein from Saccharomyces cerevisiae)
- Macrofusine (721 Da, Ligand)
- Ceramide synthase lag1 (37 kDa, Protein from Saccharomyces cerevisiae)
- [(2s)-1-hexadecanoyloxy-3-[hydroxy-[(2s,3r,5s,6r)-2,3,4,5,6-pentahydroxycyclohexyl]oxy-phosphoryl]oxy-propan-2-yl] heptadecanoate (825 Da, Ligand)
- Ammonium ion (18 Da, Ligand)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Ceramide synthase subunit lip1 (15 kDa, Protein from Saccharomyces cerevisiae)
- Hexacosanoic acid (396 Da, Ligand)
- Heterotetrameric complex of yeast ceramide synthase with lag1, lac1 and lip1 (140 kDa, Complex from Saccharomyces cerevisiae)
CryoEM structure of human full-length alpha1beta3gamma2L GABA(A)R in complex with GABA and puerarin
Resolution: 2.4 Å
EM Method: Single-particle
Fitted PDBs: 9eqg
Q-score: 0.627
Lyu Q, Xue W, Liu R, Ma Q, Kasaragod VB, Sun S, Li Q, Chen Y, Yuan M, Yang Y, Zhang B, Nie A, Jia S, Shen C, Gao P, Rong W, Yu C, Bi Y, Zhang C, Nan F, Ning G, Rao Z, Yang X, Wang J, Wang W
Nature (2024) 634 pp. 936-943 [ Pubmed: 39261733 DOI: doi:10.1038/s41586-024-07929-5 ]
- Hexadecane (226 Da, Ligand)
- 1,2-dilauroyl-sn-glycero-3-phosphate (535 Da, Ligand)
- Hexane (86 Da, Ligand)
- Gamma-aminobutyric acid receptor subunit gamma-2 (56 kDa, Protein from Homo sapiens)
- Gamma-aminobutyric acid receptor subunit alpha-1 (52 kDa, Protein from Homo sapiens)
- Palmitic acid (256 Da, Ligand)
- Water (18 Da, Ligand)
- (1r)-2-{[(s)-{[(2s)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl (9z)-octadec-9-enoate (749 Da, Ligand)
- Cryoem structure of human full-length alpha1beta3gamma2l gaba(a)r in complex with gaba and puerarin (250 kDa, Complex from Homo sapiens)
- Chloride ion (35 Da, Ligand)
- Gamma-amino-butanoic acid (103 Da, Ligand)
- Decane (142 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)
- Gamma-aminobutyric acid receptor subunit beta-3 (54 kDa, Protein from Homo sapiens)
- Puerarin (416 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Resolution: 2.97 Å
EM Method: Single-particle
Fitted PDBs: 8p1i
Q-score: 0.575
Vieira Da Cruz A, Jimenez-Castellanos JC, Bornsen C, Van Maele L, Compagne N, Pradel E, Muller RT, Meurillon V, Soulard D, Piveteau C, Biela A, Dumont J, Leroux F, Deprez B, Willand N, Pos KM, Frangakis AS, Hartkoorn RC, Flipo M
Embo Mol Med (2024) 16 pp. 93-111 [ Pubmed: 38177534 DOI: doi:10.1038/s44321-023-00007-9 ]
- 3-chloranyl-2,6-di(piperazin-4-ium-1-yl)quinoline (333 Da, Ligand)
- [(2~{r})-1-[[(2~{r})-2,3-bis(oxidanyl)propoxy]-oxidanyl-phosphoryl]oxy-3-undecanoyloxy-propan-2-yl] tricosanoate (751 Da, Ligand)
- Trimeric klebsiella pneumoniae acrb with bdm91288 efflux pump inhibitor (Complex from Klebsiella pneumoniae subsp. pneumoniae DSM 30104 = JCM 1662 = NBRC 14940)
- 1,2-dioctanoyl-sn-glycero-3-[phospho-rac-(1-glycerol) (497 Da, Ligand)
- Efflux pump membrane transporter (114 kDa, Protein from Klebsiella pneumoniae subsp. pneumoniae DSM 30104 = JCM 1662 = NBRC 14940)