Complex of FMDV O/18074 and inter-serotype broadly neutralizing antibodies pOA-2
Resolution: 2.44 Å
EM Method: Single-particle
Fitted PDBs: 8y0q
Q-score: 0.621
Li F, Wu S, Lv L, Huang S, Zhang Z, Zerang Z, Li P, Cao Y, Bao H, Sun P, Bai X, He Y, Fu Y, Yuan H, Ma X, Zhao Z, Zhang J, Wang J, Wang T, Li D, Zhang Q, He J, Liu Z, Lu Z, Lei D, Li K
PLoS Pathog (2024) 20 pp. e1012623-e1012623 [ DOI: doi:10.1371/journal.ppat.1012623 Pubmed: 39405339 ]
- Inter-serotype broadly neutralizing antibodies poa-2 (Complex from Sus scrofa)
- Complex of fmdv o/18074 and inter-serotype broadly neutralizing antibodies poa-2 (Complex)
- Vp3 of capsid protein (23 kDa, Protein from Foot-and-mouth disease virus O)
- Vp1 of capsid protein (23 kDa, Protein from Foot-and-mouth disease virus O)
- Vp4 of capsid protein (8 kDa, Protein from Foot-and-mouth disease virus O)
- Poa2 vl (11 kDa, Protein from Sus scrofa)
- Vp2 of capsid protein (24 kDa, Protein from Foot-and-mouth disease virus O)
- Fmdv o/18074 (Complex from Foot-and-mouth disease virus O)
- Poa2 vh (13 kDa, Protein from Sus scrofa)
Complex of FMDV A/WH/CHA/09 and inter-serotype broadly neutralizing antibodies pOA-2
Resolution: 2.52 Å
EM Method: Single-particle
Fitted PDBs: 8y0r
Q-score: 0.578
Li F, Wu S, Lv L, Huang S, Zhang Z, Zerang Z, Li P, Cao Y, Bao H, Sun P, Bai X, He Y, Fu Y, Yuan H, Ma X, Zhao Z, Zhang J, Wang J, Wang T, Li D, Zhang Q, He J, Liu Z, Lu Z, Lei D, Li K
PLoS Pathog (2024) 20 pp. e1012623-e1012623 [ DOI: doi:10.1371/journal.ppat.1012623 Pubmed: 39405339 ]
- Inter-serotype broadly neutralizing antibodies poa-2 (Complex from Sus scrofa)
- Complex of fmdv a/wh/cha/09 and inter-serotype broadly neutralizing antibodies poa-2 (Complex)
- Vp2 of capsid protein (24 kDa, Protein from Foot-and-mouth disease virus A)
- Vp3 of capsid protein (24 kDa, Protein from Foot-and-mouth disease virus A)
- Fmdv a/wh/cha/09 (Complex from Foot-and-mouth disease virus A)
- Vp4 of capsid protein (8 kDa, Protein from Foot-and-mouth disease virus A)
- Vp1 of capsid protein (23 kDa, Protein from Foot-and-mouth disease virus A)
- Poa2 vl (11 kDa, Protein from Sus scrofa)
- Poa2 vh (13 kDa, Protein from Sus scrofa)
Cryo-EM structure of GluN1-2A NMDAR in complex with human Fab5F6 in two fab bind conformation
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 8jiz
Q-score: 0.335
Wang H, Xie C, Deng B, Ding J, Li N, Kou Z, Jin M, He J, Wang Q, Wen H, Zhang J, Zhou Q, Chen S, Chen X, Yuan TF, Zhu S
Nat Struct Mol Biol (2024) 31 pp. 1987-1996 [ DOI: doi:10.1038/s41594-024-01387-3 Pubmed: 39227720 ]
- Fab5f6 light chain (25 kDa, Protein from Homo sapiens)
- Glutamate receptor ionotropic, nmda 2a (94 kDa, Protein from Homo sapiens)
- Glutamate receptor ionotropic, nmda 1 (95 kDa, Protein from Homo sapiens)
- Fab5f6 heavy chain (27 kDa, Protein from Homo sapiens)
- Cryo-em structure of glun1-2a nmdar in complex with human fab23 (Cell from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Cryo-EM structure of GluN1-2A NMDAR in complex with human Fab5F6 in one fab bind conformation
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 8jj0
Q-score: 0.25
Wang H, Xie C, Deng B, Ding J, Li N, Kou Z, Jin M, He J, Wang Q, Wen H, Zhang J, Zhou Q, Chen S, Chen X, Yuan TF, Zhu S
Nat Struct Mol Biol (2024) 31 pp. 1987-1996 [ DOI: doi:10.1038/s41594-024-01387-3 Pubmed: 39227720 ]
- Fab5f6 light chain (25 kDa, Protein from Homo sapiens)
- Glutamate receptor ionotropic, nmda 2a (94 kDa, Protein from Homo sapiens)
- Glutamate receptor ionotropic, nmda 1 (95 kDa, Protein from Homo sapiens)
- Cryo-em structure of glun1-2a nmdar in complex with human fab23 (Cell from Homo sapiens)
- Fab5f6 heavy chain (27 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Cryo-EM structure of GluN1-2A NMDAR in complex with human Fab2G7 in two fab conformation
Resolution: 3.77 Å
EM Method: Single-particle
Fitted PDBs: 8jj1
Q-score: 0.314
Wang H, Xie C, Deng B, Ding J, Li N, Kou Z, Jin M, He J, Wang Q, Wen H, Zhang J, Zhou Q, Chen S, Chen X, Yuan TF, Zhu S
Nat Struct Mol Biol (2024) 31 pp. 1987-1996 [ DOI: doi:10.1038/s41594-024-01387-3 Pubmed: 39227720 ]
- Glutamate receptor ionotropic, nmda 2a (94 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Fab 2g7 heavy chain (26 kDa, Protein from Homo sapiens)
- Fab 2g7 light chain (25 kDa, Protein from Homo sapiens)
- Glutamate receptor ionotropic, nmda 1 (95 kDa, Protein from Homo sapiens)
- Cryo-em structure of glun1-2a nmdar in complex with human fab28 (Cell from Homo sapiens)
Cryo-EM structure of GluN1-2A NMDAR in complex with human Fab2G7 in one fab conformation
Resolution: 4.3 Å
EM Method: Single-particle
Fitted PDBs: 8jj2
Q-score: 0.274
Wang H, Xie C, Deng B, Ding J, Li N, Kou Z, Jin M, He J, Wang Q, Wen H, Zhang J, Zhou Q, Chen S, Chen X, Yuan TF, Zhu S
Nat Struct Mol Biol (2024) 31 pp. 1987-1996 [ DOI: doi:10.1038/s41594-024-01387-3 Pubmed: 39227720 ]
- Glutamate receptor ionotropic, nmda 2a (94 kDa, Protein from Homo sapiens)
- Fab2g7 heavy chain (26 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Glutamate receptor ionotropic, nmda 1 (95 kDa, Protein from Homo sapiens)
- Fab2g7 light chain (25 kDa, Protein from Homo sapiens)
- Cryo-em structure of glun1-2a nmdar in complex with human fab28 (Cell from Homo sapiens)
Rpd3S histone deacetylase complex
Resolution: 3.46 Å
EM Method: Single-particle
Fitted PDBs: 8kc7
Q-score: 0.375
Dong S, Li H, Wang M, Rasheed N, Zou B, Gao X, Guan J, Li W, Zhang J, Wang C, Zhou N, Shi X, Li M, Zhou M, Huang J, Li H, Zhang Y, Wong KH, Zhang X, Chao WCH, He J
Cell Res (2023) 33 pp. 790-801 [ DOI: doi:10.1038/s41422-023-00869-1 Pubmed: 37666978 ]
- Transcriptional regulatory protein rco1 (84 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Chromatin modification-related protein eaf3 (45 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Transcriptional regulatory protein sin3 (157 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Histone deacetylase rpd3 (48 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Histone deacetylase complex rpd3s in its apo form (527 kDa, Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rpd3S in complex with 187bp nucleosome
Resolution: 3.02 Å
EM Method: Single-particle
Fitted PDBs: 8kd2
Q-score: 0.35
Dong S, Li H, Wang M, Rasheed N, Zou B, Gao X, Guan J, Li W, Zhang J, Wang C, Zhou N, Shi X, Li M, Zhou M, Huang J, Li H, Zhang Y, Wong KH, Zhang X, Chao WCH, He J
Cell Res (2023) 33 pp. 790-801 [ DOI: doi:10.1038/s41422-023-00869-1 Pubmed: 37666978 ]
- Histone deacetylase rpd3 (48 kDa, Protein from Saccharomyces cerevisiae)
- Chromatin modification-related protein eaf3 (45 kDa, Protein from Saccharomyces cerevisiae)
- Rpd3-sin3-eaf3-rco1 (Complex from Saccharomyces cerevisiae)
- Histone (Complex from Xenopus laevis)
- Transcriptional regulatory protein rco1 (84 kDa, Protein from Saccharomyces cerevisiae)
- 187bp dna (58 kDa, DNA from synthetic construct)
- Linker tightening state of rpd3s-ncp(187bp) (Complex)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- 187bp dna (57 kDa, DNA from synthetic construct)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Dna (Complex from synthetic construct)
- Transcriptional regulatory protein sin3 (176 kDa, Protein from Saccharomyces cerevisiae)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
Rpd3S in complex with nucleosome with H3K36MLA modification, H3K9Q mutation and 187bp DNA
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8kd3
Q-score: 0.376
Dong S, Li H, Wang M, Rasheed N, Zou B, Gao X, Guan J, Li W, Zhang J, Wang C, Zhou N, Shi X, Li M, Zhou M, Huang J, Li H, Zhang Y, Wong KH, Zhang X, Chao WCH, He J
Cell Res (2023) 33 pp. 790-801 [ DOI: doi:10.1038/s41422-023-00869-1 Pubmed: 37666978 ]
- Histone deacetylase rpd3 (48 kDa, Protein from Saccharomyces cerevisiae)
- H3k9 deacetylation state of rpd3s-ncp (187bp/mla/k9q) (Complex)
- Chromatin modification-related protein eaf3 (45 kDa, Protein from Saccharomyces cerevisiae)
- Rpd3-sin3-eaf3-rco1 (Complex from Saccharomyces cerevisiae)
- Histone (Complex from Xenopus laevis)
- Transcriptional regulatory protein rco1 (84 kDa, Protein from Saccharomyces cerevisiae)
- 187bp dna (58 kDa, DNA from synthetic construct)
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Zinc ion (65 Da, Ligand)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- 187bp dna (57 kDa, DNA from synthetic construct)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Transcriptional regulatory protein sin3 (176 kDa, Protein from Saccharomyces cerevisiae)
- Dna (Complex)
Rpd3S in complex with nucleosome with H3K36MLA modification and 187bp DNA, class1
Resolution: 2.93 Å
EM Method: Single-particle
Fitted PDBs: 8kd4
Q-score: 0.373
Dong S, Li H, Wang M, Rasheed N, Zou B, Gao X, Guan J, Li W, Zhang J, Wang C, Zhou N, Shi X, Li M, Zhou M, Huang J, Li H, Zhang Y, Wong KH, Zhang X, Chao WCH, He J
Cell Res (2023) 33 pp. 790-801 [ DOI: doi:10.1038/s41422-023-00869-1 Pubmed: 37666978 ]
- Histone h3 (15 kDa, Protein from Xenopus laevis)
- Histone deacetylase rpd3 (48 kDa, Protein from Saccharomyces cerevisiae)
- H3/h4 deacetylation state of rpd3s-ncp(187bp/mla)class1 (Complex)
- Histone (Complex from Xenopus laevis)
- Transcriptional regulatory protein rco1 (84 kDa, Protein from Saccharomyces cerevisiae)
- 187bp dna (58 kDa, DNA from synthetic construct)
- Transcriptional regulatory protein sin3 (157 kDa, Protein from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- Histone h2a (13 kDa, Protein from Xenopus laevis)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- 187bp dna (57 kDa, DNA from synthetic construct)
- Rpd3-sin3-rco1-eaf3 (Complex from Saccharomyces cerevisiae)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Chromatin modification-related protein eaf3 (45 kDa, Protein from Saccharomyces cerevisiae)
- Dna (Complex)