Li J, Purser N, Liwocha J, Scott DC, Byers HA, Steigenberger B, Hill S, Tripathi-Giesgen I, Hinkle T, Hansen FM, Prabu JR, Radhakrishnan SK, Kirkpatrick DS, Reichermeier KM, Schulman BA, Kleiger G
Mol Cell (2024) 84 pp. 1304-1320.e16 [ DOI: doi:10.1016/j.molcel.2024.01.022 Pubmed: 38382526 ]
Resolution: 3.71 Å
EM Method: Single-particle
Fitted PDBs: 8q7r
Q-score: 0.324
Li J, Purser N, Liwocha J, Scott DC, Byers HA, Steigenberger B, Hill S, Tripathi-Giesgen I, Hinkle T, Hansen FM, Prabu JR, Radhakrishnan SK, Kirkpatrick DS, Reichermeier KM, Schulman BA, Kleiger G
Mol Cell (2024) 84 pp. 1304- [ DOI: doi:10.1016/j.molcel.2024.01.022 Pubmed: 38382526 ]
- Protein fem-1 homolog c (68 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Cdc34, nedd8, elob, eloc, fem1c with ube2r2-donor ub-sil1 peptide (Complex from Homo sapiens)
- E3 ubiquitin-protein ligase rbx1 (12 kDa, Protein from Homo sapiens)
- Elongin-c (12 kDa, Protein from Homo sapiens)
- Ubiquitin-conjugating enzyme e2 r2 (27 kDa, Protein from Homo sapiens)
- Ubiquitin (77 kDa, Protein from Homo sapiens)
- Nucleotide exchange factor sil1 (2 kDa, Protein from Homo sapiens)
- Ring e3 ligase (rbx1) and cullin-2 (cul2) (Complex from Homo sapiens)
- 5-azanyl-1-oxidanyl-pentan-2-one (117 Da, Ligand)
- Cullin-2 (87 kDa, Protein from Homo sapiens)
- Elongin-b (13 kDa, Protein from Homo sapiens)
- Ubiquitin ligation to substrate by a cullin-ring e3 ligase & cdc34: nedd8-cul2-rbx1-elob/c-fem1c with trapped ube2r2~donor ub-sil1 peptide (180 kDa, Complex)
Resolution: 3.44 Å
EM Method: Single-particle
Fitted PDBs: 8r5h
Q-score: 0.394
Li J, Purser N, Liwocha J, Scott DC, Byers HA, Steigenberger B, Hill S, Tripathi-Giesgen I, Hinkle T, Hansen FM, Prabu JR, Radhakrishnan SK, Kirkpatrick DS, Reichermeier KM, Schulman BA, Kleiger G
Mol Cell (2024) 84 pp. 1304- [ DOI: doi:10.1016/j.molcel.2024.01.022 Pubmed: 38382526 ]
- Zinc ion (65 Da, Ligand)
- (2~{s},4~{r})-1-[(2~{s})-2-[2-[2-[2-[2-[2-[(9~{s})-7-(4-chlorophenyl)-4,5,13-trimethyl-3-thia-1,8,11,12-tetrazatricyclo[8.3.0.0^{2,6}]trideca-2(6),4,7,10,12-pentaen-9-yl]ethanoylamino]ethoxy]ethoxy]ethoxy]ethanoylamino]-3,3-dimethyl-butanoyl]-~{n}-[[4-(4-methyl-2,3-dihydro-1,3-thiazol-5-yl)phenyl]methyl]-4-oxidanyl-pyrrolidine-2-carboxamide (1 kDa, Ligand)
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- Elongin-c (12 kDa, Protein from Homo sapiens)
- Bromodomain-containing protein 4 (13 kDa, Protein from Homo sapiens)
- E3 ubiquitin-protein ligase rbx1, n-terminally processed (11 kDa, Protein from Homo sapiens)
- Cdc34, nedd8, elob, eloc, vhl, brd4 with ube2r2-donor ub- brd4 bd2 (Complex from Homo sapiens)
- Ring e3 ligase (rbx1) and cullin-2 (cul2) (Complex from Homo sapiens)
- Ubiquitin-conjugating enzyme e2 r2 (25 kDa, Protein from Homo sapiens)
- Cullin-2 (87 kDa, Protein from Homo sapiens)
- Ubiquitin ligation to neosubstrate by a cullin-ring e3 ligase and cdc34: nedd8-cul2-rbx1-elob/c-vhl-mz1 with trapped ube2r2~donor ub-brd4 bd2 (190 kDa, Complex from Homo sapiens)
- Von hippel-lindau disease tumor suppressor (18 kDa, Protein from Homo sapiens)
- Elongin-b (13 kDa, Protein from Homo sapiens)
- 5-azanylpentan-2-one (101 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)
Transport protein in inhibited state 2
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7m5y
Q-score: 0.452
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)
- Transport protein in inhibited state 2 monomer (130 kDa, Complex from Homo sapiens)
- Dodecane (170 Da, Ligand)
- Polyamine-transporting atpase 13a2 (129 kDa, Protein from Homo sapiens)
- Decane (142 Da, Ligand)
- Tetrafluoromagnesate(2-) (100 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Water (18 Da, Ligand)
- Cholesterol (386 Da, Ligand)
Dog beta3 adrenergic receptor bound to mirabegron in complex with a miniGs heterotrimer
Resolution: 3.16 Å
EM Method: Single-particle
Fitted PDBs: 7dh5
Q-score: 0.55
Nagiri C, Kobayashi K, Tomita A, Kato M, Kobayashi K, Yamashita K, Nishizawa T, Inoue A, Shihoya W, Nureki O
Mol Cell (2021) 81 pp. 3205-3215.e5 [ DOI: doi:10.1016/j.molcel.2021.06.024 Pubmed: 34314699 ]
- Guanine nucleotide-binding protein g(s) subunit alpha isoforms short (Complex from Homo sapiens)
- Nanobody nb35 (Complex from unidentified)
- Beta-3 adrenergic receptor (42 kDa, Protein from Canis lupus familiaris)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (38 kDa, Protein from Rattus norvegicus)
- Nanobody nb35 (15 kDa, Protein from unidentified)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Bos taurus)
- 2-(2-azanyl-1,3-thiazol-4-yl)-n-[4-[2-[[(2r)-2-oxidanyl-2-phenyl-ethyl]amino]ethyl]phenyl]ethanamide (396 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (Complex from Rattus norvegicus)
- Guanine nucleotide-binding protein g(s) subunit alpha isoforms short,guanine nucleotide-binding protein g(s) subunit alpha isoforms short (28 kDa, Protein from Homo sapiens)
- Beta-3 adrenergic receptor (Complex from Canis lupus familiaris)
- Dog beta3 adrenergic receptor bound to mirabegron in complex with a minigs heterotrimer (Complex)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (Complex from Bos taurus)
Cryo-EM structure of human KCNQ4
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 7byl
Q-score: 0.326
Li T, Wu K, Yue Z, Wang Y, Zhang F, Shen H
Mol Cell (2021) 81 pp. 25- [ Pubmed: 33238160 DOI: doi:10.1016/j.molcel.2020.10.037 ]
- Calmodulin-3 (16 kDa, Protein from Homo sapiens)
- Potassium ion (39 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)
- Complex of human kcnq4 and calmodulin (Complex from Homo sapiens)
- Water (18 Da, Ligand)
- Green fluorescent protein,potassium voltage-gated channel subfamily kqt member 4 (109 kDa, Protein from Homo sapiens)
Cryo-EM structure of human KCNQ4 with retigabine
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7bym
Q-score: 0.297
Li T, Wu K, Yue Z, Wang Y, Zhang F, Shen H
Mol Cell (2021) 81 pp. 25- [ Pubmed: 33238160 DOI: doi:10.1016/j.molcel.2020.10.037 ]
- Calmodulin-3 (16 kDa, Protein from Homo sapiens)
- Potassium ion (39 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)
- Ethyl n-[2-azanyl-4-[(4-fluorophenyl)methylamino]phenyl]carbamate (303 Da, Ligand)
- Complex of human kcnq4 and retigabine (Complex from Homo sapiens)
- Water (18 Da, Ligand)
- Green fluorescent protein,potassium voltage-gated channel subfamily kqt member 4 (109 kDa, Protein from Homo sapiens)
Cryo-EM structure of human KCNQ4 with linopirdine
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7byn
Q-score: 0.285
Li T, Wu K, Yue Z, Wang Y, Zhang F, Shen H
Mol Cell (2021) 81 pp. 25- [ Pubmed: 33238160 DOI: doi:10.1016/j.molcel.2020.10.037 ]
- Calmodulin-3 (16 kDa, Protein from Homo sapiens)
- 1-phenyl-3,3-bis(pyridin-4-ylmethyl)indol-2-one (391 Da, Ligand)
- Potassium ion (39 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)
- Complex of human kcnq4 and linopirdine (Complex from Homo sapiens)
- Green fluorescent protein,potassium voltage-gated channel subfamily kqt member 4 (109 kDa, Protein from Homo sapiens)