CX3CR1 nucleosome and wild type PU.1 complex
Resolution: 2.85 Å
EM Method: Single-particle
Fitted PDBs: 8evh
Q-score: 0.509
Lian T, Guan R, Zhou BR, Bai Y
Nat Struct Mol Biol (2024) 31 pp. 633-643 [ Pubmed: 38267599 DOI: doi:10.1038/s41594-023-01189-z ]
- Single-chain variable fragment (29 kDa, Protein from Escherichia coli)
- Dna (162-mer) (49 kDa, DNA from Mus musculus)
- Nucleosome pu.1 complex (Complex from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2b type 2-e (13 kDa, Protein from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Dna (162-mer) (50 kDa, DNA from Mus musculus)
- Transcription factor pu.1 (32 kDa, Protein from Mus musculus)
- Histone h2a type 2-c (14 kDa, Protein from Homo sapiens)
CX3CR1 nucleosome and PU.1 complex containing disulfide bond mutations
Resolution: 2.64 Å
EM Method: Single-particle
Fitted PDBs: 8evi
Q-score: 0.559
Lian T, Guan R, Zhou BR, Bai Y
Nat Struct Mol Biol (2024) 31 pp. 633-643 [ Pubmed: 38267599 DOI: doi:10.1038/s41594-023-01189-z ]
- Single-chain variable fragment (29 kDa, Protein from Escherichia coli)
- Dna (167-mer) (51 kDa, DNA from Mus musculus)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Transcription factor pu.1 (32 kDa, Protein from Mus musculus)
- Histone h2b type 2-e (13 kDa, Protein from Homo sapiens)
- Histone h2a type 2-c (14 kDa, Protein from Homo sapiens)
- Dna (167-mer) (51 kDa, DNA from Mus musculus)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Nucleosome pu.1 mutant complex (Complex from Homo sapiens)
- Histone h2a type 2-c (14 kDa, Protein from Homo sapiens)
CX3CR1 nucleosome bound PU.1 and C/EBPa
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 8evj
Q-score: 0.31
Lian T, Guan R, Zhou BR, Bai Y
Nat Struct Mol Biol (2024) 31 pp. 633-643 [ Pubmed: 38267599 DOI: doi:10.1038/s41594-023-01189-z ]
- Dna (167-mer) (51 kDa, DNA from Mus musculus)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Transcription factor pu.1 (32 kDa, Protein from Mus musculus)
- Histone h2b type 2-e (13 kDa, Protein from Homo sapiens)
- Histone h2a type 2-c (14 kDa, Protein from Homo sapiens)
- Dna (167-mer) (51 kDa, DNA from Mus musculus)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Scfv (29 kDa, Protein from Escherichia coli)
- Nucleosome complexed with pu.1 and c/ebpa (Complex from Mus musculus)
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8syp
Q-score: 0.559
Lian T, Guan R, Zhou BR, Bai Y
Nat Struct Mol Biol (2024) 31 pp. 633-643 [ Pubmed: 38267599 DOI: doi:10.1038/s41594-023-01189-z ]
- Dna (162-mer) (49 kDa, DNA from Mus musculus)
- Single-chain variable fragment (29 kDa, Protein from Mus musculus)
- Free cx3cr1 nucleosome (Complex from Homo sapiens)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2b type 2-e (13 kDa, Protein from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Dna (162-mer) (50 kDa, DNA from Mus musculus)
- Histone h2a type 2-c (14 kDa, Protein from Homo sapiens)
structure of LIN28b nucleosome bound 3 OCT4
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 7u0g
Q-score: 0.531
Guan R, Lian T, Zhou BR, Wheeler D, Bai Y
Mol Cell (2023) 83 pp. 1970-1982.e6 [ Pubmed: 37327775 DOI: doi:10.1016/j.molcel.2023.05.030 ]
- Complex of nucleosome bound to three oct-4s (Complex from Homo sapiens)
- Single-chain variable fragment (29 kDa, Protein from Mus musculus)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2b type 2-e (13 kDa, Protein from Homo sapiens)
- Dna (162-mer) (49 kDa, DNA from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Maltodextrin-binding protein,pou domain, class 5, transcription factor 1 (61 kDa, Protein from Homo sapiens)
- Histone h2a type 2-c (14 kDa, Protein from Homo sapiens)
- Dna (162-mer) (50 kDa, DNA from Homo sapiens)
Structure of LIN28b nucleosome bound 2 OCT4
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 7u0i
Q-score: 0.548
Guan R, Lian T, Zhou BR, Wheeler D, Bai Y
Mol Cell (2023) 83 pp. 1970-1982.e6 [ Pubmed: 37327775 DOI: doi:10.1016/j.molcel.2023.05.030 ]
- Single-chain variable fragment (29 kDa, Protein from Mus musculus)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2b type 2-e (13 kDa, Protein from Homo sapiens)
- Dna (162-mer) (49 kDa, DNA from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Maltodextrin-binding protein,pou domain, class 5, transcription factor 1 (61 kDa, Protein from Homo sapiens)
- Histone h2a type 2-c (14 kDa, Protein from Homo sapiens)
- Dna (162-mer) (50 kDa, DNA from Homo sapiens)
- Complex of nucleosome bound to two oct-4s (Complex from Homo sapiens)
Structure of 162bp LIN28b nucleosome
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 7u0j
Q-score: 0.568
Guan R, Lian T, Zhou BR, Wheeler D, Bai Y
Mol Cell (2023) 83 pp. 1970-1982.e6 [ Pubmed: 37327775 DOI: doi:10.1016/j.molcel.2023.05.030 ]
- Single-chain variable fragment (29 kDa, Protein from Mus musculus)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2b type 2-e (13 kDa, Protein from Homo sapiens)
- Native nucleosome (Complex from Homo sapiens)
- Dna (162-mer) (49 kDa, DNA from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Histone h2a type 2-c (14 kDa, Protein from Homo sapiens)
- Dna (162-mer) (50 kDa, DNA from Homo sapiens)
Structure of 187bp LIN28b nucleosome with site 0 mutation
Resolution: 2.71 Å
EM Method: Single-particle
Fitted PDBs: 8dk5
Q-score: 0.535
Guan R, Lian T, Zhou BR, Wheeler D, Bai Y
Mol Cell (2023) 83 pp. 1970-1982.e6 [ Pubmed: 37327775 DOI: doi:10.1016/j.molcel.2023.05.030 ]
- Single-chain variable fragment (29 kDa, Protein from Mus musculus)
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Histone h2b type 2-e (13 kDa, Protein from Homo sapiens)
- Dna (187-mer) (57 kDa, DNA from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- 187bp free nucleosome (Complex from Homo sapiens)
- Dna (187-mer) (58 kDa, DNA from Homo sapiens)
- Histone h2a type 2-c (14 kDa, Protein from Homo sapiens)
High resolution structure of ESRRB nucleosome bound OCT4 at site a and site b
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8sps
Q-score: 0.434
Guan R, Lian T, Zhou BR, Wheeler D, Bai Y
Mol Cell (2023) 83 pp. 1970-1982.e6 [ Pubmed: 37327775 DOI: doi:10.1016/j.molcel.2023.05.030 ]
- Histone h4 (11 kDa, Protein from Homo sapiens)
- Maltodextrin-binding protein,pou domain, class 5, transcription factor 1 (61 kDa, Protein from Homo sapiens)
- Histone h2b type 2-e (13 kDa, Protein from Homo sapiens)
- Dna (168-mer) (51 kDa, DNA from Homo sapiens)
- Dna (168-mer) (52 kDa, DNA from Homo sapiens)
- Histone h3.1 (15 kDa, Protein from Homo sapiens)
- Complex of esrrb nucleosome bound to oct4 (Complex from Homo sapiens)
- Scfv (29 kDa, Protein from Escherichia coli)
- Histone h2a type 2-c (14 kDa, Protein from Homo sapiens)
Low resolution reconstruction of ESRRB nucleosome bound OCT4 at site a and site b