Cryo-EM structure of alpha5beta1 integrin in complex with NeoNectin
Resolution: 3.19 Å
EM Method: Single-particle
Fitted PDBs: 9ckv
Q-score: 0.482
Wang X, Guillem-Marti J, Kumar S, Lee DS, Cabrerizo-Aguado D, Werther R, Alamo KAE, Zhao YT, Nguyen A, Kopyeva I, Huang B, Li J, Hao Y, Li X, Brizuela-Velasco A, Murray A, Gerben S, Roy A, DeForest CA, Springer T, Ruohola-Baker H, Cooper JA, Campbell MG, Manero JM, Ginebra MP, Baker D
bioRxiv (2024) [ DOI: doi:10.1101/2024.06.21.600123 Pubmed: 38979380 ]
- Neonectin (11 kDa, Protein from synthetic construct)
- Integrin alpha-5 (109 kDa, Protein from Homo sapiens)
- Protein complex of wild type integrin alpha-5 beta-1 with computationally designed protein neonectin (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Manganese (ii) ion (54 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Integrin beta-1 (81 kDa, Protein from Homo sapiens)
Resolution: 2.77 Å
EM Method: Single-particle
Fitted PDBs: 8i7v
Q-score: 0.495
Park JH, Kawakami K, Ishimoto N, Ikuta T, Ohki M, Ekimoto T, Ikeguchi M, Lee DS, Lee YH, Tame JRH, Inoue A, Park SY
Nat Commun (2023) 14 pp. 7150-7150 [ DOI: doi:10.1038/s41467-023-42764-8 Pubmed: 37932263 ]
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (8 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- 5-methyl-4-oxidanyl-pyrazin-4-ium-2-carboxylic acid (155 Da, Ligand)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Acipomox bound human hydroxy-carboxylic acid receptor 2 in complex with gi heterotrimer (150 kDa, Complex from Homo sapiens)
- Human hydroxycarboxylic acid receptor 2,hydroxycarboxylic acid receptor 2,hydroxycarboxylic acid receptor 2 (54 kDa, Protein from Homo sapiens)
- Scfv16 (27 kDa, Protein from Mus musculus)
Resolution: 3.39 Å
EM Method: Single-particle
Fitted PDBs: 8i7w
Q-score: 0.433
Park JH, Kawakami K, Ishimoto N, Ikuta T, Ohki M, Ekimoto T, Ikeguchi M, Lee DS, Lee YH, Tame JRH, Inoue A, Park SY
Nat Commun (2023) 14 pp. 7150-7150 [ DOI: doi:10.1038/s41467-023-42764-8 Pubmed: 37932263 ]
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (8 kDa, Protein from Homo sapiens)
- Human hydroxycarboxylic acid receptor 2,hydroxycarboxylic acid receptor 2 (54 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Gsk256073 bound human hydroxy-carboxylic acid receptor 2 in complex with gi heterotrimer (150 kDa, Complex from Homo sapiens)
- 8-chloranyl-3-pentyl-7h-purine-2,6-dione (256 Da, Ligand)
- Scfv16 (27 kDa, Protein from Mus musculus)
Cryo-EM structure of niacin bound human hydroxy-carboxylic acid receptor 2 (Local refinement)
Resolution: 3.43 Å
EM Method: Single-particle
Fitted PDBs: 8k5b
Q-score: 0.467
Park JH, Kawakami K, Ishimoto N, Ikuta T, Ohki M, Ekimoto T, Ikeguchi M, Lee DS, Lee YH, Tame JRH, Inoue A, Park SY
Nat Commun (2023) 14 pp. 7150-7150 [ DOI: doi:10.1038/s41467-023-42764-8 Pubmed: 37932263 ]
- Nicotinic acid (123 Da, Ligand)
- Human hydroxycarboxylic acid receptor 2 (54 kDa, Protein from Homo sapiens)
- Niacin bound human hydroxy-carboxylic acid receptor 2 (150 kDa, Complex from Homo sapiens)
Cryo-EM structure of Acipimox bound human hydroxy-carboxylic acid receptor 2 (Local refinement)
Resolution: 3.13 Å
EM Method: Single-particle
Fitted PDBs: 8k5c
Q-score: 0.524
Park JH, Kawakami K, Ishimoto N, Ikuta T, Ohki M, Ekimoto T, Ikeguchi M, Lee DS, Lee YH, Tame JRH, Inoue A, Park SY
Nat Commun (2023) 14 pp. 7150-7150 [ DOI: doi:10.1038/s41467-023-42764-8 Pubmed: 37932263 ]
- Acipimox bound human hydroxy-carboxylic acid receptor 2 (150 kDa, Complex from Homo sapiens)
- Human hydroxycarboxylic acid receptor 2 (54 kDa, Protein from Homo sapiens)
- 5-methyl-4-oxidanyl-pyrazin-4-ium-2-carboxylic acid (155 Da, Ligand)
Cryo-EM structure of GSK256073 bound human hydroxy-carboxylic acid receptor 2 (Local refinement)
Resolution: 3.74 Å
EM Method: Single-particle
Fitted PDBs: 8k5d
Q-score: 0.463
Park JH, Kawakami K, Ishimoto N, Ikuta T, Ohki M, Ekimoto T, Ikeguchi M, Lee DS, Lee YH, Tame JRH, Inoue A, Park SY
Nat Commun (2023) 14 pp. 7150-7150 [ DOI: doi:10.1038/s41467-023-42764-8 Pubmed: 37932263 ]
- Human hydroxycarboxylic acid receptor 2 (54 kDa, Protein from Homo sapiens)
- Gsk256073 bound human hydroxy-carboxylic acid receptor 2 (150 kDa, Complex from Homo sapiens)
- 8-chloranyl-3-pentyl-7h-purine-2,6-dione (256 Da, Ligand)
Resolution: 3.01 Å
EM Method: Single-particle
Fitted PDBs: 8h2g
Q-score: 0.475
Park JH, Kawakami K, Ishimoto N, Ikuta T, Ohki M, Ekimoto T, Ikeguchi M, Lee DS, Lee YH, Tame JRH, Inoue A, Park SY
Nat Commun (2023) 14 pp. 7150- [ DOI: doi:10.1038/s41467-023-42764-8 ]
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Niacin bound human hydroxy-carboxylic acid receptor 2 in complex with gi heterotrimer (150 kDa, Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (8 kDa, Protein from Homo sapiens)
- Hydroxycarboxylic acid receptor 2, guanine nucleotide-binding protein g (Complex from Mus musculus)
- Scfv16 (Complex)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Hydroxy-carboxylic acid receptor 2 (54 kDa, Protein from Homo sapiens)
- Nicotinic acid (123 Da, Ligand)
- Scfv16 (27 kDa, Protein from Mus musculus)