cryo-EM structure of a nanobody bound heliorhodopsin
Resolution: 3.23 Å
EM Method: Single-particle
Fitted PDBs: 9ljj
Q-score: 0.531
Xia R, Sun M, Lu Y, Wang N, Zhang A, Guo C, Xu Z, Cai X, He Y
Biochem Biophys Res Commun (2025) 750 pp. 151398-151398 [ DOI: doi:10.1016/j.bbrc.2025.151398 Pubmed: 39889627 ]
- Palmitic acid (256 Da, Ligand)
- Heliorhodopsin (28 kDa, Protein from Escherichia coli)
- Dimer complex (Complex from Escherichia coli)
- 1,2-dilauroyl-sn-glycero-3-phosphate (535 Da, Ligand)
- Retinal (284 Da, Ligand)
- Nanobody b4 (13 kDa, Protein from Vicugna pacos)
- Acetate ion (59 Da, Ligand)
LPA-bound LPAR6 in complex with miniG13
Resolution: 3.06 Å
EM Method: Single-particle
Fitted PDBs: 9ite
Q-score: 0.558
Duan Y, Xu Z, Hao B, Zhang A, Guo C, He Y
PNAS (2025) 122 pp. e2415426122-e2415426122 [ Pubmed: 39847322 DOI: doi:10.1073/pnas.2415426122 ]
- Palmitic acid (256 Da, Ligand)
- Engineered miniga13 (26 kDa, Protein from Homo sapiens)
- Gpcr/g-protein complex (Complex from Homo sapiens)
- Lysophosphatidic acid receptor 6 (34 kDa, Protein from Homo sapiens)
- Scfv16 (26 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- 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)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- (2r)-2-hydroxy-3-(phosphonooxy)propyl (9e)-octadec-9-enoate (436 Da, Ligand)
Qian Y, Ma Z, Xu Z, Duan Y, Xiong Y, Xia R, Zhu X, Zhang Z, Tian X, Yin H, Liu J, Song J, Lu Y, Zhang A, Guo C, Jin L, Kim WJ, Ke J, Xu F, Huang Z, He Y
Nat Commun (2024) 15 pp. 7644-7644 [ DOI: doi:10.1038/s41467-024-52174-z Pubmed: 39223191 ]
- Frizzled-4 (60 kDa, Protein from Homo sapiens)
- Segment polarity protein dishevelled homolog dvl-2 (79 kDa, Protein from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Gpcr complex (450 kDa, Complex from Homo sapiens)
Cryo-EM structure of the ISFba1 TnpB-reRNA-dsDNA complex
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8iaz
Q-score: 0.548
Ren K, Zhou F, Zhang F, Yin M, Zhu Y, Wang S, Chen Y, Huang T, Wu Z, He J, Zhang A, Guo C, Huang Z
Cell Res (2024) 34 pp. 370-385 [ DOI: doi:10.1038/s41422-024-00952-1 Pubmed: 38575718 ]
- The complex of protein with grna and target dna (Complex from Firmicutes bacterium AM43-11BH)
- Transposase (44 kDa, Protein from Firmicutes bacterium AM43-11BH)
- Zinc ion (65 Da, Ligand)
- Dna (5'-d(p*ap*cp*ap*tp*gp*gp*ap*cp*cp*ap*tp*cp*ap*gp*cp*tp*cp*cp*tp*ap*ap*tp*gp*g)-3') (7 kDa, DNA from Firmicutes bacterium AM43-11BH)
- Rna (207-mer) (66 kDa, RNA from Firmicutes bacterium AM43-11BH)
- Dna (5'-d(p*cp*cp*ap*tp*tp*ap*gp*gp*ap*gp*cp*tp*gp*ap*tp*g)-3') (4 kDa, DNA from Firmicutes bacterium AM43-11BH)
Histamine-bound H4R/Gi complex
Resolution: 3.07 Å
EM Method: Single-particle
Fitted PDBs: 8jxt
Q-score: 0.472
Xia R, Shi S, Xu Z, Vischer HF, Windhorst AD, Qian Y, Duan Y, Liang J, Chen K, Zhang A, Guo C, Leurs R, He Y
Nat Commun (2024) 15 pp. 2493-2493 [ Pubmed: 38509098 DOI: doi:10.1038/s41467-024-46840-5 ]
- Histamine (111 Da, Ligand)
- Scfv16 (26 kDa, Protein from Homo sapiens)
- Gpcr/g-protein complex (130 MDa, Complex from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Histamine h4 receptor (44 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Phosphate ion (94 Da, Ligand)
Resolution: 3.22 Å
EM Method: Single-particle
Fitted PDBs: 7yub
Q-score: 0.513
Duan Y, Leong NCP, Zhao J, Zhang Y, Nguyen DT, Ha HTT, Wang N, Xia R, Xu Z, Ma Z, Qian Y, Yin H, Zhu X, Zhang A, Guo C, Xia Y, Nguyen LN, He Y
Cell Res (2024) 34 pp. 177-180 [ DOI: doi:10.1038/s41422-023-00913-0 Pubmed: 38123825 ]
- Spns2 nanobody complex (Complex from Lama glama)
- Nbfab-h-chain (26 kDa, Protein from synthetic construct)
- (2s,3r,4e)-2-amino-3-hydroxyoctadec-4-en-1-yl dihydrogen phosphate (379 Da, Ligand)
- Sphingosine-1-phosphate transporter spns2 (58 kDa, Protein from Homo sapiens)
- Tc-nb8 (14 kDa, Protein from Lama glama)
- Nbfab-l-chain (23 kDa, Protein from synthetic construct)
Resolution: 3.64 Å
EM Method: Single-particle
Fitted PDBs: 8jwf
Q-score: 0.354
Resolution: 3.54 Å
EM Method: Single-particle
Fitted PDBs: 8jwg
Q-score: 0.335
DHA-bound FFAR4 in complex with Gs
Resolution: 3.06 Å
EM Method: Single-particle
Fitted PDBs: 8h4i
Q-score: 0.574
Yin H, Inoue A, Ma Z, Zhu X, Xia R, Xu Z, Wang N, Duan Y, Zhang A, Guo C, He Y
Cell Res (2023) 33 pp. 644-647 [ DOI: doi:10.1038/s41422-023-00835-x Pubmed: 37286793 ]
- Gpcr/g-protein complex (Complex from Homo sapiens)
- Docosa-4,7,10,13,16,19-hexaenoic acid (328 Da, Ligand)
- Engineered mini galpha-s subunit (41 kDa, Protein from Homo sapiens)
- Nb35 (17 kDa, Protein from Lama glama)
- 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)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Free fatty acid receptor 4 (40 kDa, Protein from Homo sapiens)
GW9508-bound FFAR4 in complex with Gq
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8h4k
Q-score: 0.545
Yin H, Inoue A, Ma Z, Zhu X, Xia R, Xu Z, Wang N, Duan Y, Zhang A, Guo C, He Y
Cell Res (2023) 33 pp. 644-647 [ DOI: doi:10.1038/s41422-023-00835-x Pubmed: 37286793 ]
- Engineered mini galpha-q subunit (41 kDa, Protein from Homo sapiens)
- Gpcr/g-protein complex (Complex from Homo sapiens)
- Nb35 (17 kDa, Protein from Lama glama)
- 3-(4-{[(3-phenoxyphenyl)methyl]amino}phenyl)propanoic acid (347 Da, Ligand)
- 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)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Free fatty acid receptor 4 (40 kDa, Protein from Homo sapiens)