cryo-EM structure of a nanobody bound heliorhodopsin
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 ]
- Nanobody b4 (13 kDa, Protein from Vicugna pacos)
- 1,2-dilauroyl-sn-glycero-3-phosphate (535 Da, Ligand)
- Heliorhodopsin (28 kDa, Protein from Escherichia coli)
- Palmitic acid (256 Da, Ligand)
- Retinal (284 Da, Ligand)
- Dimer complex (Complex from Escherichia coli)
- Acetate ion (59 Da, Ligand)
LPA-bound LPAR6 in complex with miniGq
Resolution: 2.89 Å
EM Method: Single-particle
Fitted PDBs: 9itb
Q-score: 0.576
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 ]
- 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)
- Palmitic acid (256 Da, Ligand)
- Engineered minigaq (41 kDa, Protein from Homo sapiens)
- Gpcr/g-protein complex (Complex from Homo sapiens)
- Nb35 (17 kDa, Protein from Lama glama)
- (2r)-2-hydroxy-3-(phosphonooxy)propyl (9e)-octadec-9-enoate (436 Da, Ligand)
- Cholesterol (386 Da, Ligand)
- Lysophosphatidic acid receptor 6 (33 kDa, Protein from Homo sapiens)
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 ]
- Engineered miniga13 (26 kDa, Protein from Homo sapiens)
- 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 (7 kDa, Protein from Homo sapiens)
- Palmitic acid (256 Da, Ligand)
- Cholesterol (386 Da, Ligand)
- Gpcr/g-protein complex (Complex from Homo sapiens)
- (2r)-2-hydroxy-3-(phosphonooxy)propyl (9e)-octadec-9-enoate (436 Da, Ligand)
- Scfv16 (26 kDa, Protein from Homo sapiens)
- Lysophosphatidic acid receptor 6 (34 kDa, Protein from Homo sapiens)
Structure of human TRPV4 with antagonist GSK279
Resolution: 3.45 Å
EM Method: Single-particle
Fitted PDBs: 8ju6
Q-score: 0.415
Fan J, Guo C, Liao D, Ke H, Lei J, Xie W, Tang Y, Tominaga M, Huang Z, Lei X
Adv Sci (2024) 11 pp. e2401583-e2401583 [ DOI: doi:10.1002/advs.202401583 Pubmed: 38659239 ]
- 1-({(5s,7s)-3-[5-(2-hydroxypropan-2-yl)pyrazin-2-yl]-7-methyl-2-oxo-1-oxa-3-azaspiro[4.5]decan-7-yl}methyl)-1h-benzimidazole-6-carbonitrile (460 Da, Ligand)
- Transient receptor potential cation channel subfamily v member 4,3c-gfp (128 kDa, Protein from synthetic construct)
- Trpv4 (400 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 ]
- Rna (207-mer) (66 kDa, RNA from Firmicutes bacterium AM43-11BH)
- Transposase (44 kDa, Protein 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)
- The complex of protein with grna and target dna (Complex from Firmicutes bacterium AM43-11BH)
- 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)
- Zinc ion (65 Da, Ligand)
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 ]
- Scfv16 (26 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Gpcr/g-protein complex (130 MDa, Complex from Homo sapiens)
- Phosphate ion (94 Da, Ligand)
- 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) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
- Histamine (111 Da, Ligand)
- Histamine h4 receptor (44 kDa, Protein from Homo sapiens)
ecCTPS filament bound with CTP, NADH, DON
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8i9o
Q-score: 0.514
Mlife (2024) 3 pp. 240-250 [ DOI: doi:10.1002/mlf2.12119 Pubmed: 38948148 ]
- Adenine (135 Da, Ligand)
- Cytidine-5'-triphosphate (483 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Ecctps filament with ctp,nadh,don (Complex from Escherichia coli 'BL21-Gold(DE3)pLysS AG')
- Ctp synthase (60 kDa, Protein from Escherichia coli 'BL21-Gold(DE3)pLysS AG')
- 5-oxo-l-norleucine (145 Da, Ligand)
Resolution: 2.79 Å
EM Method: Single-particle
Fitted PDBs: 8ww2
Q-score: 0.577
Xiong Y, Xu Z, Li X, Wang Y, Zhao J, Wang N, Duan Y, Xia R, Han Z, Qian Y, Liang J, Zhang A, Guo C, Inoue A, Xia Y, Chen Z, He Y
Cell Res (2024) 34 pp. 232-244 [ DOI: doi:10.1038/s41422-024-00932-5 Pubmed: 38287117 ]
- Gpcr/g-protein complex (Complex from Homo sapiens)
- Water (18 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(s) subunit alpha isoforms short (44 kDa, Protein from Homo sapiens)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Nb35 (15 kDa, Protein from Lama glama)
- Palmitic acid (256 Da, Ligand)
- G-protein coupled receptor 3 (35 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (38 kDa, Protein from Homo sapiens)
- Oleic acid (282 Da, Ligand)
Cryo-EM structure of the outward-facing Plasmodium falciparum multidrug resistance protein 1
Resolution: 2.94 Å
EM Method: Single-particle
Fitted PDBs: 8jwi
Q-score: 0.504
Si K, He X, Chen L, Zhang A, Guo C, Li M
PNAS (2023) 120 pp. e2219905120-e2219905120 [ DOI: doi:10.1073/pnas.2219905120 Pubmed: 37527341 ]
- Multidrug resistance protein 1 (158 kDa, Protein from Plasmodium falciparum (isolate 3D7))
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Plasmodium falciparum multidrug resistance protein 1 in the outward-facing conformation (Complex from Plasmodium falciparum (isolate 3D7))
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)
- 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)
- Nb35 (17 kDa, Protein from Lama glama)
- Engineered mini galpha-s subunit (41 kDa, Protein from Homo sapiens)
- Docosa-4,7,10,13,16,19-hexaenoic acid (328 Da, Ligand)
- Free fatty acid receptor 4 (40 kDa, Protein from Homo sapiens)