Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8v4y
Q-score: 0.53
Chio US, Palovcak E, Smith AAA, Autzen H, Munoz EN, Yu Z, Wang F, Agard DA, Armache JP, Narlikar GJ, Cheng Y
Nat Commun (2024) 15 pp. 2225-2225 [ DOI: doi:10.1038/s41467-024-46178-y Pubmed: 38472177 ]
- Nucleosome with xenopus laevis histones (200 kDa, Complex)
- Swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily a member 5 (122 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Atp-dependent chromatin remodeler snf2h in complex with nucleosome (300 kDa, Complex)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Widom 601 dna (147-mer) with 60 base pairs flanking dna (forward strand) (63 kDa, DNA from synthetic construct)
- Beryllium trifluoride ion (66 Da, Ligand)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Histone h2a type 1 (13 kDa, Protein from Xenopus laevis)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Widom 601 dna (147-mer) with 60 base pairs flanking dna (reverse strand) (64 kDa, DNA from synthetic construct)
- Snf2h (100 kDa, Complex from Homo sapiens)
- Histone h2b (13 kDa, Protein from Xenopus laevis)
Cryo-EM structure of doubly-bound SNF2h-nucleosome complex
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8v6v
Q-score: 0.477
Chio US, Palovcak E, Smith AAA, Autzen H, Munoz EN, Yu Z, Wang F, Agard DA, Armache JP, Narlikar GJ, Cheng Y
Nat Commun (2024) 15 pp. 2225-2225 [ DOI: doi:10.1038/s41467-024-46178-y Pubmed: 38472177 ]
- Nucleosome with xenopus laevis histones (200 kDa, Complex)
- Swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily a member 5 (122 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Atp-dependent chromatin remodeler snf2h in complex with nucleosome (300 kDa, Complex)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Widom 601 dna (147-mer) with 60 base pairs flanking dna (forward strand) (63 kDa, DNA from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Histone h2a type 1 (13 kDa, Protein from Xenopus laevis)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Widom 601 dna (147-mer) with 60 base pairs flanking dna (reverse strand) (64 kDa, DNA from synthetic construct)
- Snf2h (100 kDa, Complex from Homo sapiens)
- Histone h2b (13 kDa, Protein from Xenopus laevis)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8v7l
Q-score: 0.456
Chio US, Palovcak E, Smith AAA, Autzen H, Munoz EN, Yu Z, Wang F, Agard DA, Armache JP, Narlikar GJ, Cheng Y
Nat Commun (2024) 15 pp. 2225-2225 [ DOI: doi:10.1038/s41467-024-46178-y Pubmed: 38472177 ]
- Nucleosome with xenopus laevis histones (200 kDa, Complex)
- Swi/snf-related matrix-associated actin-dependent regulator of chromatin subfamily a member 5 (122 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Atp-dependent chromatin remodeler snf2h in complex with nucleosome (300 kDa, Complex)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Widom 601 dna (147-mer) with 60 base pairs flanking dna (forward strand) (63 kDa, DNA from synthetic construct)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Widom 601 dna (147-mer) plus 60 base pairs flanking dna (reverse strand) (64 kDa, DNA from synthetic construct)
- Histone h2a type 1 (13 kDa, Protein from Xenopus laevis)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Snf2h (100 kDa, Complex from Homo sapiens)
- Histone h2b (13 kDa, Protein from Xenopus laevis)
EM map of the human UBR5 HECT-type E3 ubiquitin ligase in a dimeric form
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8d4x
Q-score: 0.358
Wang F, He Q, Zhan W, Yu Z, Finkin-Groner E, Ma X, Lin G, Li H
Structure (2023) 31 pp. 541-552.e4 [ DOI: doi:10.1016/j.str.2023.03.010 Pubmed: 37040767 ]
- Homodimer of human e3 ligase ubr5 (610 kDa, Complex from Homo sapiens)
- E3 ubiquitin-protein ligase ubr5 (310 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
EM map of the human UBR5 HECT-type E3 ubiquitin ligase in a C2 symmetric dimeric form
Resolution: 2.66 Å
EM Method: Single-particle
Fitted PDBs: 8e0q
Q-score: 0.425
Wang F, He Q, Zhan W, Yu Z, Finkin-Groner E, Ma X, Lin G, Li H
Structure (2023) 31 pp. 541-552.e4 [ DOI: doi:10.1016/j.str.2023.03.010 Pubmed: 37040767 ]
- E3 ubiquitin-protein ligase ubr5 (310 kDa, Protein from Homo sapiens)
- Homodimer of human e3 ligase ubr5 (610 kDa, Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
EM map of the human UBR5 HECT-type E3 ubiquitin ligase in a tetrameric form
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8ewi
Q-score: 0.248
Wang F, He Q, Zhan W, Yu Z, Finkin-Groner E, Ma X, Lin G, Li H
Structure (2023) 31 pp. 541-552.e4 [ DOI: doi:10.1016/j.str.2023.03.010 Pubmed: 37040767 ]
- Homodimer of human e3 ligase ubr5 (610 kDa, Complex from Homo sapiens)
- E3 ubiquitin-protein ligase ubr5 (309 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
Resolution: 2.13 Å
EM Method: Single-particle
Fitted PDBs: 7jfo
Q-score: 0.734
He S, Chou HT, Matthies D, Wunder T, Meyer MT, Atkinson N, Martinez-Sanchez A, Jeffrey PD, Port SA, Patena W, He G, Chen VK, Hughson FM, McCormick AJ, Mueller-Cajar O, Engel BD, Yu Z, Jonikas MC
Nat Plants (2020) 6 pp. 1480-1490 [ DOI: doi:10.1038/s41477-020-00811-y Pubmed: 33230314 ]
- Water (18 Da, Ligand)
- Lci5 (2 kDa, Protein from Chlamydomonas reinhardtii)
- Epyc1(49-72) peptide-bound rubisco (Complex from Chlamydomonas reinhardtii)
- Ribulose bisphosphate carboxylase large chain (52 kDa, Protein from Chlamydomonas reinhardtii)
- Ribulose bisphosphate carboxylase small chain 2, chloroplastic (20 kDa, Protein from Chlamydomonas reinhardtii)
Resolution: 2.68 Å
EM Method: Single-particle
Fitted PDBs: 7jn4
Q-score: 0.624
He S, Chou HT, Matthies D, Wunder T, Meyer MT, Atkinson N, Martinez-Sanchez A, Jeffrey PD, Port SA, Patena W, He G, Chen VK, Hughson FM, McCormick AJ, Mueller-Cajar O, Engel BD, Yu Z, Jonikas MC
Nat Plants (2020) 6 pp. 1480-1490 [ DOI: doi:10.1038/s41477-020-00811-y Pubmed: 33230314 ]
- Ribulose bisphosphate carboxylase large chain (52 kDa, Protein from Chlamydomonas reinhardtii)
- Water (18 Da, Ligand)
- Rubisco at apo state (Complex from Chlamydomonas reinhardtii)
- Ribulose bisphosphate carboxylase small chain 2, chloroplastic (20 kDa, Protein from Chlamydomonas reinhardtii)
EPYC1(106-135) peptide-bound Rubisco
Resolution: 2.06 Å
EM Method: Single-particle
Fitted PDBs: 7jsx
Q-score: 0.677
He S, Chou HT, Matthies D, Wunder T, Meyer MT, Atkinson N, Martinez-Sanchez A, Jeffrey PD, Port SA, Patena W, He G, Chen VK, Hughson FM, McCormick AJ, Mueller-Cajar O, Engel BD, Yu Z, Jonikas MC
Nat Plants (2020) 6 pp. 1480-1490 [ DOI: doi:10.1038/s41477-020-00811-y Pubmed: 33230314 ]
- Water (18 Da, Ligand)
- Ribulose bisphosphate carboxylase large chain (52 kDa, Protein from Chlamydomonas reinhardtii)
- Ribulose bisphosphate carboxylase small chain 2, chloroplastic (20 kDa, Protein from Chlamydomonas reinhardtii)
- Epyc1(106-135) peptide-bound rubisco (Complex from Chlamydomonas reinhardtii)
- Epyc1 (3 kDa, Protein from Chlamydomonas reinhardtii)
Structure of human GABA(B) receptor in an inactive state
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 6wiv
Q-score: 0.486
Park J, Fu Z, Frangaj A, Liu J, Mosyak L, Shen T, Slavkovich VN, Ray KM, Taura J, Cao B, Geng Y, Zuo H, Kou Y, Grassucci R, Chen S, Liu Z, Lin X, Williams JP, Rice WJ, Eng ET, Huang RK, Soni RK, Kloss B, Yu Z, Javitch JA, Hendrickson WA, Slesinger PA, Quick M, Graziano J, Yu H, Fiehn O, Clarke OB, Frank J, Fan QR
Nature (2020) 584 pp. 304-309 [ Pubmed: 32581365 DOI: doi:10.1038/s41586-020-2452-0 ]
- [(2r)-3-[(z)-icos-11-enoyl]oxy-2-[(z)-octadec-9-enoyl]oxypropyl] 2-(trimethylazaniumyl)ethyl phosphate (814 Da, Ligand)
- Heterodimer human gaba(b) receptor composed of gaba(b1b) and gaba(b2) subunits. (193 kDa, Complex from Homo sapiens)
- Gamma-aminobutyric acid type b receptor subunit 1 (91 kDa, Protein from Homo sapiens)
- (2r)-3-{[(s)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-{[(9z)-octadec-9-enoyl]oxy}propyl (5z,8z,11z,14z)-icosa-5,8,11,14-tetraenoate (766 Da, Ligand)
- Gamma-aminobutyric acid type b receptor subunit 2 (93 kDa, Protein from Homo sapiens)
- Cholesterol (386 Da, Ligand)
- Calcium ion (40 Da, Ligand)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)