Alpha1/BetaB Heteromeric Glycine Receptor in Strychnine-Bound State
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7tu9
Q-score: 0.521
Gibbs E, Klemm E, Seiferth D, Kumar A, Ilca SL, Biggin PC, Chakrapani S
Nat Commun (2023) 14 pp. 1363- [ DOI: doi:10.1038/s41467-023-37106-7 ]
- Glycine receptor subunit alphaz1 (52 kDa, Protein from Danio rerio)
- Strychnine (334 Da, Ligand)
- Zebrafish alpha1 betab heteromeric glycine receptor (250 kDa, Complex from Danio rerio)
- 1,2-dimyristoyl-sn-glycero-3-phosphocholine (678 Da, Ligand)
- Glycine receptor beta subunit 2 (65 kDa, Protein from Danio rerio)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- [(2r)-2-octanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate (746 Da, Ligand)
The open state mouse TRPM8 structure in complex with the cooling agonist C3, AITC, and PI(4,5)P2
Resolution: 3.32 Å
EM Method: Single-particle
Fitted PDBs: 8e4l
Q-score: 0.407
Yin Y, Zhang F, Feng S, Butay KJ, Borgnia MJ, Im W, Lee SY
Science (2022) 378 pp. eadd1268-eadd1268 [ DOI: doi:10.1126/science.add1268 Pubmed: 36227998 ]
- Transient receptor potential cation channel subfamily m member 8 (131 kDa, Protein from Mus musculus)
- [(2r)-2-octanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate (746 Da, Ligand)
- Transient receptor potential cation channel subfamily m member 8 (Complex from Mus musculus)
- Nonyl(oxo)di(propan-2-yl)-lambda~5~-phosphane (260 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- 3-isothiocyanatoprop-1-ene (99 Da, Ligand)
The intermediate C2-state mouse TRPM8 structure in complex with the cooling agonist C3 and PI(4,5)P2
Resolution: 3.44 Å
EM Method: Single-particle
Fitted PDBs: 8e4m
Q-score: 0.384
Yin Y, Zhang F, Feng S, Butay KJ, Borgnia MJ, Im W, Lee SY
Science (2022) 378 pp. eadd1268-eadd1268 [ DOI: doi:10.1126/science.add1268 Pubmed: 36227998 ]
- Transient receptor potential cation channel subfamily m member 8 (131 kDa, Protein from Mus musculus)
- Transient receptor potential cation channel subfamily m member 8 (Complex from Mus musculus)
- Nonyl(oxo)di(propan-2-yl)-lambda~5~-phosphane (260 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- [(2r)-2-octanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate (746 Da, Ligand)
The closed C1-state mouse TRPM8 structure in complex with PI(4,5)P2
Resolution: 3.07 Å
EM Method: Single-particle
Fitted PDBs: 8e4n
Q-score: 0.436
Yin Y, Zhang F, Feng S, Butay KJ, Borgnia MJ, Im W, Lee SY
Science (2022) 378 pp. eadd1268-eadd1268 [ DOI: doi:10.1126/science.add1268 Pubmed: 36227998 ]
- Transient receptor potential cation channel subfamily m member 8 (Complex from Mus musculus)
- [(2r)-2-octanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate (746 Da, Ligand)
- Transient receptor potential cation channel subfamily m member 8 (131 kDa, Protein from Mus musculus)
The closed C1-state mouse TRPM8 structure in complex with putative PI(4,5)P2
Resolution: 3.43 Å
EM Method: Single-particle
Fitted PDBs: 8e4o
Q-score: 0.425
Yin Y, Zhang F, Feng S, Butay KJ, Borgnia MJ, Im W, Lee SY
Science (2022) 378 pp. eadd1268-eadd1268 [ DOI: doi:10.1126/science.add1268 Pubmed: 36227998 ]
- Transient receptor potential cation channel subfamily m member 8 (Complex from Mus musculus)
- [(2r)-2-octanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate (746 Da, Ligand)
- Transient receptor potential cation channel subfamily m member 8 (131 kDa, Protein from Mus musculus)
T5 phage receptor-binding protein pb5 bound to ferrichrome transporter FhuA
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8a8c
Q-score: 0.549
van den Berg B, Silale A, Basle A, Brandner AF, Mader SL, Khalid S
PNAS (2022) 119 pp. e2211672119-e2211672119 [ DOI: doi:10.1073/pnas.2211672119 Pubmed: 36215462 ]
- [(2r,3s,4r,5r,6r)-2-[[(2r,4r,5r,6r)-6-[(1r)-1,2-bis(oxidanyl)ethyl]-4-[(2r,4r,5r,6r)-6-[(1r)-1,2-bis(oxidanyl)ethyl]-2-carboxy-4,5-bis(oxidanyl)oxan-2-yl]oxy-2-carboxy-5-oxidanyl-oxan-2-yl]oxymethyl]-5-[[(3r)-3-dodecanoyloxytetradecanoyl]amino]-4-(3-nonanoyloxypropanoyloxy)-6-[[(2r,3s,4r,5r,6r)-3-oxidanyl-4-[(3s)-3-oxidanyltetradecanoyl]oxy-5-[[(3r)-3-oxidanyltridecanoyl]amino]-6-phosphonatooxy-oxan-2-yl]methoxy]oxan-3-yl] phosphate (1 kDa, Ligand)
- T5 phage receptor-binding protein pb5 bound to ferrichrome transporter fhua (148 kDa, Complex from Escherichia phage T5)
- Ferrichrome outer membrane transporter/phage receptor (78 kDa, Protein from Escherichia coli K-12)
- Receptor-binding protein pb5 (69 kDa, Protein from Escherichia phage T5)
Phophorylated Drs2p-Cdc50p in a PS and ATP-bound E2P state
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7pem
Q-score: 0.516
Wang Y, Lyons JA, Timcenko M, Kummerer F, de Groot BL, Nissen P, Gapsys V, Lindorff-Larsen K
To Be Published
- Binary complex of drs2p-cdc50p with the regulatory lipid pi4p and transport substrate ps (180 kDa, Complex from Saccharomyces cerevisiae)
- Cell division control protein 50 (45 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Probable phospholipid-transporting atpase drs2 (154 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Magnesium ion (24 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- O-[(r)-[(2s)-2-(hexadecanoyloxy)-3-(octadecanoyloxy)propoxy](hydroxy)phosphoryl]-d-serine (764 Da, Ligand)
- (2r)-1-{[(r)-hydroxy{[(1r,2r,3r,4r,5s,6r)-2,3,5,6-tetrahydroxy-4-(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}-3-(octadecanoyloxy)propan-2-yl (5z,8z,11z,14z)-icosa-5,8,11,14-tetraenoate (967 Da, Ligand)
- Water (18 Da, Ligand)
Local refinement of Band 3-II transmembrane domains, class 1 of erythrocyte ankyrin-1 complex
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7v19
Q-score: 0.484
Vallese F, Kim K, Yen LY, Johnston JD, Noble AJ, Cali T, Clarke OB
Nat Struct Mol Biol (2022) 29 pp. 706-718 [ DOI: doi:10.1038/s41594-022-00792-w Pubmed: 35835865 ]
- Band 3 anion transport protein (101 kDa, Protein from Homo sapiens)
- Glycophorin-a (16 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- [(2r)-2-octanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate (746 Da, Ligand)
- Erythrocyte ankyrin-1 complex (Complex from Homo sapiens)
Local refinement of Band 3-I transmembrane domains, class 1 of erythrocyte ankyrin-1 complex
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8crq
Q-score: 0.52
Vallese F, Kim K, Yen LY, Johnston JD, Noble AJ, Cali T, Clarke OB
Nat Struct Mol Biol (2022) 29 pp. 706-718 [ DOI: doi:10.1038/s41594-022-00792-w Pubmed: 35835865 ]
- Band 3 anion transport protein (101 kDa, Protein from Homo sapiens)
- Glycophorin-a (16 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- [(2r)-2-octanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate (746 Da, Ligand)
- Erythrocyte ankyrin-1 complex (Complex from Homo sapiens)
Local refinement of Band 3-III transmembrane domains, class 1 of erythrocyte ankyrin-1 complex
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8crr
Q-score: 0.574
Vallese F, Kim K, Yen LY, Johnston JD, Noble AJ, Cali T, Clarke OB
Nat Struct Mol Biol (2022) 29 pp. 706-718 [ DOI: doi:10.1038/s41594-022-00792-w Pubmed: 35835865 ]
- Band 3 anion transport protein (101 kDa, Protein from Homo sapiens)
- Glycophorin-a (16 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- [(2r)-2-octanoyloxy-3-[oxidanyl-[(1r,2r,3s,4r,5r,6s)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate (746 Da, Ligand)
- Erythrocyte ankyrin-1 complex (Complex from Homo sapiens)