Cryo-EM map of zebrafish cardiac F-actin
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 8ord
Q-score: 0.415
Bradshaw M, Squire JM, Morris E, Atkinson G, Richardson R, Lees J, Caputo M, Bigotti GM, Paul DM
J.Muscle Res.Cell.Motil. (2023) 44 pp. 179-192 [ DOI: doi:10.1007/s10974-023-09653-5 Pubmed: 37480427 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Actin, alpha 1b, skeletal muscle (42 kDa, Protein from Danio rerio)
- Phosphate ion (94 Da, Ligand)
- Cardiac f-actin (Complex from Danio rerio)
CryoEM Structure of NLRP3 NACHT domain in complex with G2394
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8etr
Q-score: 0.488
McBride C, Trzoss L, Povero D, Lazic M, Ambrus-Aikelin G, Santini A, Pranadinata R, Bain G, Stansfield R, Stafford JA, Veal J, Takahashi R, Ly J, Chen S, Liu L, Nespi M, Blake R, Katewa A, Kleinheinz T, Sujatha-Bhaskar S, Ramamoorthi N, Sims J, McKenzie B, Chen M, Ultsch M, Johnson M, Murray J, Ciferri C, Staben ST, Townsend MJ, Stivala CE
J Med Chem (2022) 65 pp. 14721-14739 [ DOI: doi:10.1021/acs.jmedchem.2c01250 Pubmed: 36279149 ]
- Adenosine-5'-diphosphate (427 Da, Ligand)
- (6s,8r)-n-[(1,2,3,5,6,7-hexahydro-s-indacen-4-yl)carbamoyl]-6-(methylamino)-6,7-dihydro-5h-pyrazolo[5,1-b][1,3]oxazine-3-sulfonamide (431 Da, Ligand)
- Nlrp3 nacht domain (120 kDa, Complex from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Nacht, lrr and pyd domains-containing protein 3 (63 kDa, Protein from Homo sapiens)
Substance P bound to active human neurokinin 1 receptor in complex with miniGs/q70
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7rmg
Q-score: 0.532
Harris JA, Faust B, Gondin AB, Damgen MA, Suomivuori CM, Veldhuis NA, Cheng Y, Dror RO, Thal DM, Manglik A
Nat Chem Biol (2022) 18 pp. 109-115 [ Pubmed: 34711980 DOI: doi:10.1038/s41589-021-00890-8 ]
- Nanobody 35 (15 kDa, Protein from Lama glama)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1/gamma-2 (Complex from Homo sapiens)
- Substance-p receptor (Complex from Homo sapiens)
- Substance p (Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(s)/g(q) subunit alpha hybrid (Complex from Homo sapiens)
- Substance p (1 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(s) subunit alpha isoforms short, with certain residues mutated to match guanine nucleotide-binding protein g(q) subunit (26 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (40 kDa, Protein from Homo sapiens)
- Nanobody 35 (Complex from Lama glama)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Substance-p receptor (47 kDa, Protein from Homo sapiens)
- Substance p bound to neurokinin 1 receptor-minigs/q70 complex (Complex)
Substance P bound to active human neurokinin 1 receptor in complex with miniGs399
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7rmh
Q-score: 0.492
Harris JA, Faust B, Gondin AB, Damgen MA, Suomivuori CM, Veldhuis NA, Cheng Y, Dror RO, Thal DM, Manglik A
Nat Chem Biol (2022) 18 pp. 109-115 [ Pubmed: 34711980 DOI: doi:10.1038/s41589-021-00890-8 ]
- Substance p bound to neurokinin1 receptor-minigs399 complex (Complex)
- Nanobody 35 (15 kDa, Protein from Lama glama)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1/gamma-2 (Complex from Homo sapiens)
- Substance-p receptor (Complex from Homo sapiens)
- Substance p (Complex from Homo sapiens)
- Substance p (1 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(s) subunit alpha isoforms short (28 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (40 kDa, Protein from Homo sapiens)
- Minigs399 (Complex from Homo sapiens)
- Nanobody 35 (Complex from Lama glama)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Substance-p receptor (47 kDa, Protein from Homo sapiens)
SP6-11 biased agonist bound to active human neurokinin 1 receptor in complex with miniGs/q70
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7rmi
Q-score: 0.458
Harris JA, Faust B, Gondin AB, Damgen MA, Suomivuori CM, Veldhuis NA, Cheng Y, Dror RO, Thal DM, Manglik A
Nat Chem Biol (2022) 18 pp. 109-115 [ Pubmed: 34711980 DOI: doi:10.1038/s41589-021-00890-8 ]
- Nanobody 35 (15 kDa, Protein from Lama glama)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1/gamma-2 (Complex from Homo sapiens)
- Substance-p receptor (Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(s)/g(q) subunit alpha hybrid (Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(s) subunit alpha isoforms short, with certain residues mutated to match guanine nucleotide-binding protein g(q) subunit (26 kDa, Protein from Homo sapiens)
- Substance p 6-11 (Complex from synthetic construct)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (40 kDa, Protein from Homo sapiens)
- Nanobody 35 (Complex from Lama glama)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Substance-p receptor (47 kDa, Protein from Homo sapiens)
- Substance p 6-11 (739 Da, Protein from synthetic construct)
- Substance p bound to neurokinin 1 receptor-minigs/q70 complex (Complex)
Cryo-EM structure of human TMEM120A in the CoASH-free state
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 7f3u
Q-score: 0.335
Rong Y, Jiang J, Gao Y, Guo J, Song D, Liu W, Zhang M, Zhao Y, Xiao B, Liu Z
eLife (2021) 10 [ DOI: doi:10.7554/eLife.71474 Pubmed: 34409941 ]
- Transmembrane protein 120a (Cell from Homo sapiens)
- Transmembrane protein 120a (44 kDa, Protein from Homo sapiens)
Cryo-EM of the SLFN12-PDE3A complex: PDE3A body refinement
Resolution: 2.97 Å
EM Method: Single-particle
Fitted PDBs: 7lrc
Q-score: 0.437
Garvie CW, Wu X, Papanastasiou M, Lee S, Fuller J, Schnitzler GR, Horner SW, Baker A, Zhang T, Mullahoo JP, Westlake L, Hoyt SH, Toetzl M, Ranaghan MJ, de Waal L, McGaunn J, Kaplan B, Piccioni F, Yang X, Lange M, Tersteegen A, Raymond D, Lewis TA, Carr SA, Cherniack AD, Lemke CT, Meyerson M, Greulich H
Nat Commun (2021) 12 pp. 4375-4375 [ Pubmed: 34272366 DOI: doi:10.1038/s41467-021-24495-w ]
- Cgmp-inhibited 3',5'-cyclic phosphodiesterase a (57 kDa, Protein from Homo sapiens)
- Schlafen family member 12 (67 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Manganese (ii) ion (54 Da, Ligand)
- (4~{r})-3-[4-(diethylamino)-3-[oxidanyl(oxidanylidene)-$l^{4}-azanyl]phenyl]-4-methyl-4,5-dihydro-1~{h}-pyridazin-6-one (305 Da, Ligand)
- Slfn12-pde3a complex, pde3a body with interacting peptide from slfn12 (Complex from Homo sapiens)
Cryo-EM of the SLFN12-PDE3A complex: Consensus subset model
Resolution: 3.22 Å
EM Method: Single-particle
Fitted PDBs: 7lrd
Q-score: 0.434
Garvie CW, Wu X, Papanastasiou M, Lee S, Fuller J, Schnitzler GR, Horner SW, Baker A, Zhang T, Mullahoo JP, Westlake L, Hoyt SH, Toetzl M, Ranaghan MJ, de Waal L, McGaunn J, Kaplan B, Piccioni F, Yang X, Lange M, Tersteegen A, Raymond D, Lewis TA, Carr SA, Cherniack AD, Lemke CT, Meyerson M, Greulich H
Nat Commun (2021) 12 pp. 4375-4375 [ Pubmed: 34272366 DOI: doi:10.1038/s41467-021-24495-w ]
- Slfn12-pde3a complex, consensus subset model (Complex from Homo sapiens)
- Cgmp-inhibited 3',5'-cyclic phosphodiesterase a (57 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Schlafen family member 12 (67 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Manganese (ii) ion (54 Da, Ligand)
- (4~{r})-3-[4-(diethylamino)-3-[oxidanyl(oxidanylidene)-$l^{4}-azanyl]phenyl]-4-methyl-4,5-dihydro-1~{h}-pyridazin-6-one (305 Da, Ligand)
Cryo-EM of the SLFN12-PDE3A complex: SLFN12 body refinement
Resolution: 2.76 Å
EM Method: Single-particle
Fitted PDBs: 7lre
Q-score: 0.509
Garvie CW, Wu X, Papanastasiou M, Lee S, Fuller J, Schnitzler GR, Horner SW, Baker A, Zhang T, Mullahoo JP, Westlake L, Hoyt SH, Toetzl M, Ranaghan MJ, de Waal L, McGaunn J, Kaplan B, Piccioni F, Yang X, Lange M, Tersteegen A, Raymond D, Lewis TA, Carr SA, Cherniack AD, Lemke CT, Meyerson M, Greulich H
Nat Commun (2021) 12 pp. 4375-4375 [ Pubmed: 34272366 DOI: doi:10.1038/s41467-021-24495-w ]
- Slfn12-pde3a complex, slfn12 body (Complex from Homo sapiens)
- Schlafen family member 12 (67 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
Single-Particle Cryo-EM Structure of Arabinofuranosyltransferase AftD from Mycobacteria
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 6w98
Q-score: 0.535
Tan YZ, Zhang L, Rodrigues J, Zheng RB, Giacometti SI, Rosario AL, Kloss B, Dandey VP, Wei H, Brunton R, Raczkowski AM, Athayde D, Catalao MJ, Pimentel M, Clarke OB, Lowary TL, Archer M, Niederweis M, Potter CS, Carragher B, Mancia F
Mol Cell (2020) 78 pp. 683- [ DOI: doi:10.1016/j.molcel.2020.04.014 Pubmed: 32386575 ]
- F5/8 type c domain-containing protein (Complex from Mycobacteroides abscessus subsp. abscessus)
- Acyl carrier protein (8 kDa, Protein from Escherichia coli (strain K12))
- Calcium ion (40 Da, Ligand)
- [(2~{r})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] (~{z})-octadec-9-enoate (717 Da, Ligand)
- F5/8 type c domain-containing protein (149 kDa, Protein from Mycobacteroides abscessus subsp. abscessus)
- 4'-phosphopantetheine (358 Da, Ligand)
- Water (18 Da, Ligand)
- Acyl carrier protein (Cellular component from Escherichia coli (strain K12))
- Wild-type mycobacterial arabinofuranosyltransferase aftd complexed with acyl carrier protein (50 kDa, Cellular component)