Structure of nucleosome complexed with two DEK molecules
Kujirai T, Echigoya K, Kishi Y, Saeki M, Ito T, Kato J, Negishi L, Ogasawara M, Kimura H, Masumoto H, Takizawa Y, Gotoh Y, Kurumizaka H
To Be Published
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2a type 1-b/e (14 kDa, Protein from Homo sapiens)
- Protein dek (43 kDa, Protein from Homo sapiens)
- Dna (193-mer) (59 kDa, DNA from synthetic construct)
- Dek dimer bound to the nucleosome (Complex from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Histone h2b type 1-j (14 kDa, Protein from Homo sapiens)
- Dna (193-mer) (59 kDa, DNA from synthetic construct)
Ternary complex of human DNA polymerase theta polymerase domain with a cognate C:G base pair
To Be Published
- Dna (5'-d(p*gp*cp*ap*tp*cp*cp*gp*tp*ap*gp*(2da))-3') (6 kDa, DNA from Homo sapiens)
- Ternary complex of human dna polymerase theta polymerase domain with a cognate c:g base pair (Complex from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 2'-deoxyguanosine-5'-triphosphate (507 Da, Ligand)
- Dna polymerase theta (89 kDa, Protein from Homo sapiens)
- Dna (5'-d(*ap*gp*cp*tp*cp*tp*ap*cp*gp*gp*ap*tp*gp*c)-3') (8 kDa, DNA from Homo sapiens)
Ternary complex of human DNA polymerase theta polymerase domain with a mismatched T:T base pair
To Be Published
- Dna (5'-d(p*ap*gp*tp*gp*cp*tp*ap*cp*g)-3') (8 kDa, DNA from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Thymidine-5'-triphosphate (482 Da, Ligand)
- Ternary complex of human dna polymerase theta polymerase domain with a mismatched t:t base pair (Complex from Homo sapiens)
- Dna polymerase theta (89 kDa, Protein from Homo sapiens)
- Dna (5'-d(p*cp*gp*tp*ap*gp*(doc))-3') (6 kDa, DNA from Homo sapiens)
Ternary complex of human DNA polymerase theta polymerase domain with a mismatched T:G base pair
To Be Published
- Dna (5'-d(p*tp*gp*ap*gp*gp*cp*ap*tp*cp*cp*gp*tp*ap*gp*(doc))-3') (6 kDa, DNA from Homo sapiens)
- 2'-deoxyguanosine-5'-triphosphate (507 Da, Ligand)
- Ternary complex of human dna polymerase theta with duplex dna and incoming nucleotide (Complex from Homo sapiens)
- Dna (5'-d(p*gp*tp*gp*cp*tp*ap*cp*gp*gp*ap*tp*gp*cp*cp*tp*cp*a)-3') (8 kDa, DNA from Homo sapiens)
- Dna polymerase theta (89 kDa, Protein from Homo sapiens)
Biased agonist bound CB1-Gi structure
Rangari VA, O'Brien ES, Powers AS, Slivicki R, Bertels Z, Appourchaux K, Aydin D, Ramos-Gonzalez N, Mwirigi J, Lin L, Mangutov E, Sobecks BL, Awad-Agbaria Y, Uphade MB, Aguilar J, Peddada TN, Shiimura Y, Huang X-P, Folarin-Hines J, Payne M, Kalathil A, Varga BR, Kobilka BK, Pradhan AA, Cameron MD, Kumar KK, Dror RO, Gereau RW, Majumdar S
Nature (2025) [ DOI: doi:10.1038/s41586-025-08618-7 ]
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Methyl n-{6-(4-carbamimidamidobutoxy)-1-[(4-fluorophenyl)methyl]-1h-indazole-3-carbonyl}-3-methyl-l-valinate (526 Da, Ligand)
- Scfv16 (27 kDa, Protein from Mus musculus)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Cb1-gi complex (Complex from Homo sapiens)
- Cannabinoid receptor 1 (55 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
Biased agonist bound CB1-Gi structure
Rangari VA, O'Brien ES, Powers AS, Slivicki R, Bertels Z, Appourchaux K, Aydin D, Ramos-Gonzalez N, Mwirigi J, Lin L, Mangutov E, Sobecks BL, Awad-Agbaria Y, Uphade MB, Aguilar J, Peddada TN, Shiimura Y, Huang X-P, Folarin-Hines J, Payne M, Kalathil A, Varga BR, Kobilka BK, Pradhan AA, Cameron MD, Kumar KK, Dror RO, Gereau RW, Majumdar S
Nature (2025) [ DOI: doi:10.1038/s41586-025-08618-7 ]
- Methyl n-{1-[(4-fluorophenyl)methyl]-1h-indazole-3-carbonyl}-3-methyl-l-valinate (397 Da, Ligand)
- Guanine nucleotide-binding protein g(i)/g(s)/g(o) subunit gamma-2 (7 kDa, Protein from Homo sapiens)
- Scfv16 (27 kDa, Protein from Mus musculus)
- Guanine nucleotide-binding protein g(i)/g(s)/g(t) subunit beta-1 (37 kDa, Protein from Homo sapiens)
- Cb1-gi complex (Complex from Homo sapiens)
- Cannabinoid receptor 1 (55 kDa, Protein from Homo sapiens)
- Guanine nucleotide-binding protein g(i) subunit alpha-1 (40 kDa, Protein from Homo sapiens)
Ca2+ free hSlo1 + beta2N-beta4 channel in nanodisc.
Agarwal S, Kim ED, Lee S, Simon A, Accardi A, Nimigean CM
Nat Commun (2025) 16 pp. 1769-1769 [ DOI: doi:10.1038/s41467-025-56844-4 Pubmed: 39971906 ]
- Inactivating beta2n-beta4 subunit chimera (Complex from Homo sapiens)
- Hslo1 channel (Complex from Homo sapiens)
- (2s)-3-(hexadecanoyloxy)-2-[(9z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate (760 Da, Ligand)
- Ca2+ free bk channel complex of hslo1 + beta2n-beta4 subunit (Complex from Homo sapiens)
- Large-conductance ca2+-activated k+ channel beta2 subunit,calcium-activated potassium channel subunit beta-4 (27 kDa, Protein from Homo sapiens)
- Isoform 5 of calcium-activated potassium channel subunit alpha-1 (118 kDa, Protein from Homo sapiens)
- Potassium ion (39 Da, Ligand)
- Cholesterol (386 Da, Ligand)
The Cryo-EM structure of recombinantly expressed hUGDH in complex with UDP-4-keto-xylose
O'Brien JH, Kadirvelraj R, Tseng PS, Ross-Kemppinen N, Crich D, Walsh Jr RM, Wood ZA
Biochemistry (2025) 64 pp. 92-104 [ Pubmed: 39680853 DOI: doi:10.1021/acs.biochem.4c00555 ]
- (2r,3r,4r)-3,4-dihydroxy-5-oxooxan-2-yl [(2r,3s,4r,5r)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2h)-yl)-3,4-dihydroxyoxolan-2-yl]methyl dihydrogen diphosphate (non-preferred name) (534 Da, Ligand)
- Water (18 Da, Ligand)
- Human udp-glucose dehydrogenase in complex with udp-4-keto-xylose (55 kDa, Complex from Homo sapiens)
- Udp-glucose 6-dehydrogenase (55 kDa, Protein from Homo sapiens)
Structure of nanobody AT206 in complex with the losartan-bound angiotensin II type I receptor (AT1R)
Skiba MA, Canavan C, Nemeth GR, Liu J, Kanso A, Kruse AC
To Be Published
- Bag2 anti-bril fab light chain (23 kDa, Protein from synthetic construct)
- [2-butyl-5-chloranyl-3-[[4-[2-(2h-1,2,3,4-tetrazol-5-yl)phenyl]phenyl]methyl]imidazol-4-yl]methanol (422 Da, Ligand)
- Nanobody at206 in complex with the losartan-bound angiotensin ii type i receptor (at1r) (Complex from Homo sapiens)
- Bag2 anti-bril fab heavy chain (24 kDa, Protein from synthetic construct)
- Nanobody at206,type-1 angiotensin ii receptor,soluble cytochrome b562 (65 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- Cholesterol hemisuccinate (486 Da, Ligand)
Ariza AJF, Lue NZ, Grob P, Kaeser B, Fang J, Kassube SA, Nogales E
bioRxiv (2025) [ Pubmed: 39975028 DOI: doi:10.1101/2025.01.29.634372 ]
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Homo sapiens)
- Template dna, nucleic acid scaffold (8 kDa, DNA from Homo sapiens)
- Rna, nucleic acid scaffold (6 kDa, RNA from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc4 (7 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Homo sapiens)
- Non-template dna, nucleic acid scaffold (13 kDa, DNA from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb2 (134 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb1 (217 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb4 (16 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Homo sapiens)
- Free stalled human rna polymerase ii elongation complex in an intermediate translocation state (430 kDa, Complex from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc1 (24 kDa, Protein from Homo sapiens)