Cryo-EM structure of the adhesion GPCR ADGRD1 in complex with miniGs
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7wu2
Q-score: 0.53
Qu X, Qiu N, Wang M, Zhang B, Du J, Zhong Z, Xu W, Chu X, Ma L, Yi C, Han S, Shui W, Zhao Q, Wu B
Nature (2022) 604 pp. 779-785 [ Pubmed: 35418679 DOI: doi:10.1038/s41586-022-04580-w ]
- Nanobody nb35 (Complex from Lama glama)
- Nanobody nb35 (17 kDa, Protein from Lama glama)
- Adhesion g-protein coupled receptor d1 (38 kDa, Protein from Homo sapiens)
- The adhesion gpcr adgrd1 in complex with minigs (Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (38 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(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
Cryo-EM structure of the adhesion GPCR ADGRF1 in complex with miniGs
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7wu3
Q-score: 0.501
Qu X, Qiu N, Wang M, Zhang B, Du J, Zhong Z, Xu W, Chu X, Ma L, Yi C, Han S, Shui W, Zhao Q, Wu B
Nature (2022) 604 pp. 779-785 [ Pubmed: 35418679 DOI: doi:10.1038/s41586-022-04580-w ]
- Nanobody nb35 (17 kDa, Protein from Lama glama)
- The adhesion gpcr adgrf1 in complex with minigs (Complex from Homo sapiens)
- [(2~{r})-2-oxidanyl-3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxy-propyl] hexadecanoate (496 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (38 kDa, Protein from Homo sapiens)
- Adhesion g-protein coupled receptor f1 (74 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(s) subunit alpha isoforms short (28 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Nanobody nb35 (Complex from Homo sapiens)
Cryo-EM structure of the adhesion GPCR ADGRF1 in complex with miniGi
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7wu4
Q-score: 0.428
Qu X, Qiu N, Wang M, Zhang B, Du J, Zhong Z, Xu W, Chu X, Ma L, Yi C, Han S, Shui W, Zhao Q, Wu B
Nature (2022) 604 pp. 779-785 [ Pubmed: 35418679 DOI: doi:10.1038/s41586-022-04580-w ]
- [(2~{r})-2-oxidanyl-3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxy-propyl] hexadecanoate (496 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (38 kDa, Protein from Homo sapiens)
- Adhesion g-protein coupled receptor f1 (74 kDa, Protein from Homo sapiens)
- The adhesion gpcr adgrf1 in complex with minigi (Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (27 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
Cryo-EM structure of the adhesion GPCR ADGRF1(H565A/T567A) in complex with miniGi
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7wu5
Q-score: 0.492
Qu X, Qiu N, Wang M, Zhang B, Du J, Zhong Z, Xu W, Chu X, Ma L, Yi C, Han S, Shui W, Zhao Q, Wu B
Nature (2022) 604 pp. 779-785 [ Pubmed: 35418679 DOI: doi:10.1038/s41586-022-04580-w ]
- Adhesion g-protein coupled receptor f1 (74 kDa, Protein from Homo sapiens)
- [(2~{r})-2-oxidanyl-3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxy-propyl] hexadecanoate (496 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (38 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- The adhesion gpcr adgrf1(h565a/t567a) in complex with minigi (Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (27 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
S protein of SARS-CoV-2 in complex with 2G1
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 7x08
Q-score: 0.458
Ma H, Guo Y, Tang H, Tseng CK, Wang L, Zong H, Wang Z, He Y, Chang Y, Wang S, Huang H, Ke Y, Yuan Y, Wu M, Zhang Y, Drelich A, Kempaiah KR, Peng BH, Wang A, Yang K, Yin H, Liu J, Yue Y, Xu W, Zhu S, Ji T, Zhang X, Wang Z, Li G, Liu G, Song J, Mu L, Xiang Z, Song Z, Chen H, Bian Y, Zhang B, Chen H, Zhang J, Liao Y, Zhang L, Yang L, Chen Y, Gilly J, Xiao X, Han L, Jiang H, Xie Y, Zhou Q, Zhu J
Cell Discov (2022) 8 pp. 16-16 [ DOI: doi:10.1038/s41421-022-00381-7 Pubmed: 35169121 ]
- S protein of sars-cov-2 in complex with 2g1 (Complex)
- Light chain of 2g1 (22 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Heavy chain of 2g1 (49 kDa, Protein from Homo sapiens)
- 2g1 (Complex from Homo sapiens)
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus)
- Linoleic acid (280 Da, Ligand)
- S protein of sars-cov-2 (Complex from Severe acute respiratory syndrome coronavirus)
S protein of SARS-CoV-2 in complex with 2G1 focused on RBD_2G1 sub-complex
Ma H, Guo Y, Tang H, Tseng CK, Wang L, Zong H, Wang Z, He Y, Chang Y, Wang S, Huang H, Ke Y, Yuan Y, Wu M, Zhang Y, Drelich A, Kempaiah KR, Peng BH, Wang A, Yang K, Yin H, Liu J, Yue Y, Xu W, Zhu S, Ji T, Zhang X, Wang Z, Li G, Liu G, Song J, Mu L, Xiang Z, Song Z, Chen H, Bian Y, Zhang B, Chen H, Zhang J, Liao Y, Zhang L, Yang L, Chen Y, Gilly J, Xiao X, Han L, Jiang H, Xie Y, Zhou Q, Zhu J
Cell Discov (2022) 8 pp. 16-16 [ DOI: doi:10.1038/s41421-022-00381-7 Pubmed: 35169121 ]
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7e3k
Q-score: 0.298
Li T, Han X, Gu C, Guo H, Zhang H, Wang Y, Hu C, Wang K, Liu F, Luo F, Zhang Y, Hu J, Wang W, Li S, Hao Y, Shen M, Huang J, Long Y, Song S, Wu R, Mu S, Chen Q, Gao F, Wang J, Long S, Li L, Wu Y, Gao Y, Xu W, Cai X, Qu D, Zhang Z, Zhang H, Li N, Gao Q, Zhang G, He C, Wang W, Ji X, Tang N, Yuan Z, Xie Y, Yang H, Zhang B, Huang A, Jin A
Nat Commun (2021) 12 pp. 6304-6304 [ Pubmed: 34728625 DOI: doi:10.1038/s41467-021-26539-7 ]
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 13g9 heavy chain (23 kDa, Protein from Homo sapiens)
- Fab (Complex)
- Sars-cov-2 spike glycoprotein complex with 13g9 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
- Spike glycoprotein (Complex from Homo sapiens)
- 13g9 light chain (23 kDa, Protein from Homo sapiens)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7e3l
Q-score: 0.349
Li T, Han X, Gu C, Guo H, Zhang H, Wang Y, Hu C, Wang K, Liu F, Luo F, Zhang Y, Hu J, Wang W, Li S, Hao Y, Shen M, Huang J, Long Y, Song S, Wu R, Mu S, Chen Q, Gao F, Wang J, Long S, Li L, Wu Y, Gao Y, Xu W, Cai X, Qu D, Zhang Z, Zhang H, Li N, Gao Q, Zhang G, He C, Wang W, Ji X, Tang N, Yuan Z, Xie Y, Yang H, Zhang B, Huang A, Jin A
Nat Commun (2021) 12 pp. 6304-6304 [ Pubmed: 34728625 DOI: doi:10.1038/s41467-021-26539-7 ]
- Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- 58g6 heavy chain (23 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- 58g6 light chain (23 kDa, Protein from Homo sapiens)
- Fab (Complex)
- Spike glycoprotein (Complex from Homo sapiens)
- Sars-cov-2 spike glycoprotein complex with 58g6 fab (Complex from Severe acute respiratory syndrome coronavirus 2)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 7bvc
Q-score: 0.564
Zhang L, Zhao Y, Gao Y, Wu L, Gao R, Zhang Q, Wang Y, Wu C, Wu F, Gurcha SS, Veerapen N, Batt SM, Zhao W, Qin L, Yang X, Wang M, Zhu Y, Zhang B, Bi L, Zhang X, Yang H, Guddat LW, Xu W, Wang Q, Li J, Besra GS, Rao Z
Science (2020) 368 pp. 1211-1219 [ DOI: doi:10.1126/science.aba9102 Pubmed: 32327601 ]
- Mycobacterium smegmatis arabinosyltransferase emba-embb-acpm2 in complex with ethambutol (Complex)
- Phosphate ion (94 Da, Ligand)
- Ethambutol (204 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Integral membrane indolylacetylinositol arabinosyltransferase embb (119 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Cardiolipin (1 kDa, Ligand)
- [(2z,6e,10e,14z,18e,22z,26z)-3,7,11,15,19,23,27,31,35,39-decamethyltetraconta-2,6,10,14,18,22,26,30,34,38-decaenyl] [(2s,3s,4s,5r)-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl] hydrogen phosphate (911 Da, Ligand)
- Acpm (Complex from Mycolicibacterium smegmatis MC2 155)
- 4'-phosphopantetheine (358 Da, Ligand)
- Integral membrane indolylacetylinositol arabinosyltransferase emba (116 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Emba-embb (Complex from Mycolicibacterium smegmatis MC2 155)
- Meromycolate extension acyl carrier protein (10 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
Resolution: 2.81 Å
EM Method: Single-particle
Fitted PDBs: 7bve
Q-score: 0.552
Zhang L, Zhao Y, Gao Y, Wu L, Gao R, Zhang Q, Wang Y, Wu C, Wu F, Gurcha SS, Veerapen N, Batt SM, Zhao W, Qin L, Yang X, Wang M, Zhu Y, Zhang B, Bi L, Zhang X, Yang H, Guddat LW, Xu W, Wang Q, Li J, Besra GS, Rao Z
Science (2020) 368 pp. 1211-1219 [ DOI: doi:10.1126/science.aba9102 Pubmed: 32327601 ]
- Phosphate ion (94 Da, Ligand)
- Ethambutol (204 Da, Ligand)
- N~3~-[(2s)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-n-(2-sulfanylethyl)-beta-alaninamide (358 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Acpm (Complex from Mycolicibacterium smegmatis MC2 155)
- Integral membrane indolylacetylinositol arabinosyltransferase embc (116 kDa, Protein from Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
- Mycobacterium smegmatis arabinosyltransferase embc2-acpm2 in complex with ethambutol (Complex)
- Embc (Complex from Mycolicibacterium smegmatis MC2 155)
- Meromycolate extension acyl carrier protein (10 kDa, Protein from Mycolicibacterium smegmatis MC2 155)