CryoEM structure of mu-opioid receptor - Gi protein complex bound to mitragynine pseudoindoxyl (MP)
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 7t2g
Q-score: 0.672
Qu Q, Huang W, Aydin D, Paggi JM, Seven AB, Wang H, Chakraborty S, Che T, DiBerto JF, Robertson MJ, Inoue A, Suomivuori CM, Roth BL, Majumdar S, Dror RO, Kobilka BK, Skiniotis G
Nat Chem Biol (2022) [ DOI: doi:10.1038/s41589-022-01208-y Pubmed: 36411392 ]
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Soluble cytochrome b562,mu-type opioid receptor (55 kDa, Protein from Mus musculus)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Mu-opioid receptor / gi protein complex bound to mitragynine pseudoindoxyl (mp). (Complex from Mus musculus)
- Mitragynine pseudoindoxyl (414 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- Cholesterol (386 Da, Ligand)
Resolution: 2.53 Å
EM Method: Single-particle
Fitted PDBs: 7wld
Q-score: 0.615
Xu Y, Jia G, Li T, Zhou Z, Luo Y, Chao Y, Bao J, Su Z, Qu Q, Li D
Nat Commun (2022) 13 pp. 2617-2617 [ Pubmed: 35551457 DOI: doi:10.1038/s41467-022-30250-6 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Digitonin (1 kDa, Ligand)
- Gpi transamidase complex (Complex from Homo sapiens)
- Glycosylphosphatidylinositol anchor attachment 1 protein (96 kDa, Protein from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Cholesterol (386 Da, Ligand)
- O-[(r)-{[(2r)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-l-serine (792 Da, Ligand)
- 2-amino-2-deoxy-alpha-d-glucopyranose (179 Da, Ligand)
- Gpi transamidase component pig-t (94 kDa, Protein from Homo sapiens)
- (4s,7r)-7-[(hexadecanoyloxy)methyl]-4-hydroxy-n,n,n-trimethyl-4,9-dioxo-3,5,8-trioxa-4lambda~5~-phosphahexacosan-1-aminium (763 Da, Ligand)
- [(2~{r})-1-hexadecanoyloxy-3-[[(1~{s},2~{r},3~{r},4~{s},5~{s},6~{r})-2-hexadecanoyloxy-3,4,5,6-tetrakis(oxidanyl)cyclohexyl]oxy-oxidanyl-phosphoryl]oxy-propan-2-yl] (9~{z},11~{z})-octadeca-9,11-dienoate (1 kDa, Ligand)
- Gpi transamidase component pig-s (90 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- Gpi-anchor transamidase (73 kDa, Protein from Homo sapiens)
- 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine (744 Da, Ligand)
- Phosphatidylinositol glycan anchor biosynthesis class u protein (80 kDa, Protein from Homo sapiens)
- 2-azanylethyl [(2~{s},3~{s},4~{s},5~{s},6~{r})-6-(hydroxymethyl)-2,4,5-tris(oxidanyl)oxan-3-yl] hydrogen phosphate (303 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- [(2r)-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-yl] octadecanoate (720 Da, Ligand)
FH210 bound Mu Opioid Receptor-Gi Protein Complex
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7scg
Q-score: 0.575
Wang H, Hetzer F, Huang W, Qu Q, Meyerowitz J, Kaindl J, Hubner H, Skiniotis G, Kobilka BK, Gmeiner P
Angew Chem Int Ed Engl (2022) 61 pp. e202200269-e202200269 [ Pubmed: 35385593 DOI: doi:10.1002/anie.202200269 ]
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- (2e)-n-[(2s)-2-(dimethylamino)-3-(4-hydroxyphenyl)propyl]-3-(naphthalen-1-yl)prop-2-enamide (374 Da, Ligand)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Mu-type opioid receptor (39 kDa, Protein from Mus musculus)
- Fh210 bound mu opioid receptor-gi protein 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)
- Scfv16 (27 kDa, Protein from Mus musculus)
Structure of CX3CL1-US28-G11iN18-scFv16 in TL-state
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 7rkf
Q-score: 0.44
Tsutsumi N, Maeda S, Qu Q, Voegele M, Jude KM, Suomivuori CM, Panova O, Waghray D, Kato HE, Velasco A, Dror RO, Skiniotis G, Kobilka BK, Garcia KC
Sci Adv (2022) 8 pp. eabl5442- [ DOI: doi:10.1126/sciadv.abl5442 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Scfv16 (30 kDa, Complex from Mus musculus)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Cx3cl1-us28 (50 kDa, Complex from Human betaherpesvirus 5)
- Cx3cl1-us28-g11in18-scfv16 complex (Complex)
- G-protein coupled receptor homolog us28 (42 kDa, Protein from Human cytomegalovirus)
- Guanine nucleotide-binding protein subunit alpha-11 (41 kDa, Protein from Homo sapiens)
- Antibody fragment scfv16 (27 kDa, Protein from Mus musculus)
- Fractalkine (10 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- G11in18 heterotrimer (90 kDa, Complex from Homo sapiens)
Structure of CX3CL1-US28-Gi-scFv16 in C-state
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7rkm
Q-score: 0.477
Tsutsumi N, Maeda S, Qu Q, Voegele M, Jude KM, Suomivuori CM, Panova O, Waghray D, Kato HE, Velasco A, Dror RO, Skiniotis G, Kobilka BK, Garcia KC
Sci Adv (2022) 8 pp. eabl5442- [ DOI: doi:10.1126/sciadv.abl5442 ]
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Scfv16 (30 kDa, Complex from Mus musculus)
- Cx3cl1-us28-gi-scfv16 complex (Complex)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Cx3cl1-us28 (50 kDa, Complex from Human betaherpesvirus 5)
- Gi heterotrimer (90 kDa, Complex from Homo sapiens)
- Fractalkine (10 kDa, Protein from Homo sapiens)
- Antibody fragment scfv16 (27 kDa, Protein from Mus musculus)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- G-protein coupled receptor homolog us28 (42 kDa, Protein from Human betaherpesvirus 5)
Binding mode of US27-Gi-scFv16 in OCL-state
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7rky
Q-score: 0.43
Tsutsumi N, Maeda S, Qu Q, Voegele M, Jude KM, Suomivuori CM, Panova O, Waghray D, Kato HE, Velasco A, Dror RO, Skiniotis G, Kobilka BK, Garcia KC
Sci Adv (2022) 8 pp. eabl5442- [ DOI: doi:10.1126/sciadv.abl5442 ]
- Us27-gi-scfv16 complex (Complex)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Scfv16 (30 kDa, Complex from Mus musculus)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Gi heterotrimer (90 kDa, Complex from Homo sapiens)
- Us27 (40 kDa, Complex from Human betaherpesvirus 5)
- Antibody fragment scfv16 (27 kDa, Protein from Mus musculus)
- G-protein coupled receptor homolog us27 (44 kDa, Protein from Human cytomegalovirus)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
CryoEM structure of SGLT1 at 3.4 A resolution
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7sl8
Q-score: 0.467
Han L, Qu Q, Aydin D, Panova O, Robertson MJ, Xu Y, Dror RO, Skiniotis G, Feng L
Nature (2022) 601 pp. 274-279 [ Pubmed: 34880492 DOI: doi:10.1038/s41586-021-04211-w ]
- Nanobody-sglt complex (Complex from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- Nanobody nb1 (14 kDa, Protein from synthetic construct)
- Sodium/glucose cotransporter 1 (74 kDa, Protein from Homo sapiens)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7sl9
Q-score: 0.463
Han L, Qu Q, Aydin D, Panova O, Robertson MJ, Xu Y, Dror RO, Skiniotis G, Feng L
Nature (2022) 601 pp. 274-279 [ Pubmed: 34880492 DOI: doi:10.1038/s41586-021-04211-w ]
- Sodium-coupled monocarboxylate transporter 1 (67 kDa, Protein from Homo sapiens)
- Butanoic acid (88 Da, Ligand)
- Nanobody nb2 (14 kDa, Protein from synthetic construct)
- Smct1 and nanobody complex (Complex from Homo sapiens)
CryoEM structure of SGLT1 at 3.15 angstrom resolution
Resolution: 3.15 Å
EM Method: Single-particle
Fitted PDBs: 7sla
Q-score: 0.505
Han L, Qu Q, Aydin D, Panova O, Robertson MJ, Xu Y, Dror RO, Skiniotis G, Feng L
Nature (2022) 601 pp. 274-279 [ Pubmed: 34880492 DOI: doi:10.1038/s41586-021-04211-w ]
- Cholesterol hemisuccinate (486 Da, Ligand)
- Nanobody nb1 (14 kDa, Protein from synthetic construct)
- Sglt1 and nanobody complex (Complex from Homo sapiens)
- Sodium/glucose cotransporter 1 (74 kDa, Protein from Homo sapiens)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7v6y
Q-score: 0.448
Luo Y, Wan G, Zhang X, Zhou X, Wang Q, Fan J, Cai H, Ma L, Wu H, Qu Q, Cong Y, Zhao Y, Li D
Structure (2021) 29 pp. 1286- [ DOI: doi:10.1016/j.str.2021.06.004 Pubmed: 34174188 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Protein patched homolog 1,protein patched homolog 1 (121 kDa, Protein from Mus musculus)
- Ptc1 in lipid nanodisc (160 MDa, Complex from Mus musculus)
- Cholesterol (386 Da, Ligand)
- (2s)-2-azanyl-3-[[(2s)-3-butanoyloxy-2-dec-9-enoyloxy-propoxy]-oxidanyl-phosphoryl]oxy-propanoic acid (481 Da, Ligand)