Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8oqy
Q-score: 0.473
Odorcic I, Hamed MB, Lismont S, Chavez-Gutierrez L, Efremov RG
Nat Commun (2024) 15 pp. 4479-4479 [ DOI: doi:10.1038/s41467-024-48776-2 Pubmed: 38802343 ]
- Presenilin-1 ctf12 (52 kDa, Protein from Homo sapiens)
- Gamma secretase (172 kDa, Complex from Homo sapiens)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Gamma-secretase subunit pen-2 (12 kDa, Protein from Homo sapiens)
- Gamma-secretase subunit aph-1b (28 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Nicastrin (79 kDa, Protein from Homo sapiens)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8oqz
Q-score: 0.496
Odorcic I, Hamed MB, Lismont S, Chavez-Gutierrez L, Efremov RG
Nat Commun (2024) 15 pp. 4479-4479 [ DOI: doi:10.1038/s41467-024-48776-2 Pubmed: 38802343 ]
- Gamma secretase (172 kDa, Complex from Homo sapiens)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Presenilin-1 ctf12 (52 kDa, Protein from Homo sapiens)
- Gamma-secretase subunit pen-2 (12 kDa, Protein from Homo sapiens)
- Amyloid-beta peptide 1-46 (5 kDa, Protein from Homo sapiens)
- Gamma-secretase subunit aph-1b (28 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Nicastrin (79 kDa, Protein from Homo sapiens)
Human TRP channel TRPV6 in cNW30 nanodiscs inhibited by tetrahydrocannabivarin (THCV)
Resolution: 2.79 Å
EM Method: Single-particle
Fitted PDBs: 8sp8
Q-score: 0.515
Neuberger A, Trofimov YA, Yelshanskaya MV, Khau J, Nadezhdin KD, Khosrof LS, Krylov NA, Efremov RG, Sobolevsky AI
Nat Commun (2023) 14 pp. 4630-4630 [ DOI: doi:10.1038/s41467-023-40362-2 Pubmed: 37532722 ]
- Sample 1 (76 kDa, Complex from Homo sapiens)
- (2s)-3-(hexadecanoyloxy)-2-[(9z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate (760 Da, Ligand)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Tetrahydrocannabivarin (286 Da, Ligand)
- Chloride ion (35 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- Transient receptor potential cation channel subfamily v member 6 (76 kDa, Protein from Homo sapiens)
Structure of GroEL:GroES-ATP complex plunge frozen 200 ms after reaction initiation
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8bm0
Q-score: 0.401
Torino S, Dhurandhar M, Stroobants A, Claessens R, Efremov RG
Nat Methods (2023) 20 pp. 1400-1408 [ Pubmed: 37592181 DOI: doi:10.1038/s41592-023-01967-z ]
- Magnesium ion (24 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Chaperonin groel (57 kDa, Protein from Escherichia coli)
- Potassium ion (39 Da, Ligand)
- Groel:groes-atp complex (950 kDa, Complex from Escherichia coli)
- Co-chaperonin groes (10 kDa, Protein from Escherichia coli)
Cryo-EM structure of human TRPV6 in complex with the natural phytoestrogen genistein
Resolution: 2.66 Å
EM Method: Single-particle
Fitted PDBs: 8foa
Q-score: 0.546
Neuberger A, Trofimov YA, Yelshanskaya MV, Nadezhdin KD, Krylov NA, Efremov RG, Sobolevsky AI
Nat Commun (2023) 14 pp. 2659-2659 [ DOI: doi:10.1038/s41467-023-38352-5 Pubmed: 37160865 ]
- (2s)-3-(hexadecanoyloxy)-2-[(9z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate (760 Da, Ligand)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Sample 1 (83 kDa, Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Genistein (270 Da, Ligand)
- Transient receptor potential cation channel subfamily v member 6 (83 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
Cryo-EM structure of human TRPV6 in the open state
Resolution: 2.71 Å
EM Method: Single-particle
Fitted PDBs: 8fob
Q-score: 0.468
Neuberger A, Trofimov YA, Yelshanskaya MV, Nadezhdin KD, Krylov NA, Efremov RG, Sobolevsky AI
Nat Commun (2023) 14 pp. 2659-2659 [ DOI: doi:10.1038/s41467-023-38352-5 Pubmed: 37160865 ]
- Water (18 Da, Ligand)
- (2s)-3-(hexadecanoyloxy)-2-[(9z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate (760 Da, Ligand)
- Cholesterol hemisuccinate (486 Da, Ligand)
- Sample 1 (83 kDa, Complex from Homo sapiens)
- 1,2-dioleoyl-sn-glycero-3-phosphocholine (787 Da, Ligand)
- Transient receptor potential cation channel subfamily v member 6 (83 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 7qd4
Q-score: 0.446
Shkumatov AV, Aryanpour N, Oger CA, Goossens G, Hallet BF, Efremov RG
Nat Commun (2022) 13 pp. 6155-6155 [ Pubmed: 36257990 DOI: doi:10.1038/s41467-022-33871-z ]
- Ir100 dna substrate, transferred strand (30 kDa, DNA from Bacillus thuringiensis)
- Dna substrate (Complex from Bacillus thuringiensis)
- Hyperactive tnpa mutant s911r (Complex from Bacillus thuringiensis)
- Ir100 dna substrate, none transferred strand (30 kDa, DNA from Bacillus thuringiensis)
- Tnpa-ir100 complex (Complex)
- Transposase for transposon tn4430 (116 kDa, Protein from Bacillus thuringiensis)
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7qd5
Q-score: 0.462
Shkumatov AV, Aryanpour N, Oger CA, Goossens G, Hallet BF, Efremov RG
Nat Commun (2022) 13 pp. 6155-6155 [ Pubmed: 36257990 DOI: doi:10.1038/s41467-022-33871-z ]
- Dna substrate (Complex from Bacillus thuringiensis)
- Hyperactive tnpa mutant s911r (Complex from Bacillus thuringiensis)
- Tnpa-ir48 complex (Complex)
- Ir48 transferred strand (14 kDa, DNA from Bacillus thuringiensis)
- Transposase for transposon tn4430 (116 kDa, Protein from Bacillus thuringiensis)
- Ir48 dna substrate, non transferred strand (14 kDa, DNA from Bacillus thuringiensis)
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7qd6
Q-score: 0.351
Shkumatov AV, Aryanpour N, Oger CA, Goossens G, Hallet BF, Efremov RG
Nat Commun (2022) 13 pp. 6155-6155 [ Pubmed: 36257990 DOI: doi:10.1038/s41467-022-33871-z ]
- Tnpa-ir71st complex (Complex)
- Dna substrate (Complex from Bacillus thuringiensis)
- Ir71st transferred strand (24 kDa, DNA from Bacillus thuringiensis)
- Hyperactive tnpa mutant s911r (Complex from Bacillus thuringiensis)
- Ir71st transferred strand (7 kDa, DNA from Bacillus thuringiensis)
- Transposase for transposon tn4430 (116 kDa, Protein from Bacillus thuringiensis)
- Ir71st non transferred strand (21 kDa, DNA from Bacillus thuringiensis)
Cryo-EM structure of Tn4430 TnpA transposase from Tn3 family in apo state
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7qd8
Q-score: 0.352
Shkumatov AV, Aryanpour N, Oger CA, Goossens G, Hallet BF, Efremov RG
Nat Commun (2022) 13 pp. 6155-6155 [ Pubmed: 36257990 DOI: doi:10.1038/s41467-022-33871-z ]