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Yorodumi- PDB-5xm0: The mouse nucleosome structure containing H2A, H2B type3-A, H3.3,... -
+Open data
-Basic information
Entry | Database: PDB / ID: 5xm0 | ||||||||||||
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Title | The mouse nucleosome structure containing H2A, H2B type3-A, H3.3, and H4 | ||||||||||||
Components |
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Keywords | STRUCTURAL PROTEIN/DNA / nucleosome / chromatin / DNA-Protein complex / STRUCTURAL PROTEIN-DNA complex | ||||||||||||
Function / homology | Function and homology information negative regulation of chromosome condensation / Barr body / regulation of centromere complex assembly / SUMOylation of chromatin organization proteins / Deposition of new CENPA-containing nucleosomes at the centromere / Condensation of Prophase Chromosomes / G2/M DNA damage checkpoint / HDMs demethylate histones / Processing of DNA double-strand break ends / Nonhomologous End-Joining (NHEJ) ...negative regulation of chromosome condensation / Barr body / regulation of centromere complex assembly / SUMOylation of chromatin organization proteins / Deposition of new CENPA-containing nucleosomes at the centromere / Condensation of Prophase Chromosomes / G2/M DNA damage checkpoint / HDMs demethylate histones / Processing of DNA double-strand break ends / Nonhomologous End-Joining (NHEJ) / Metalloprotease DUBs / muscle cell differentiation / UCH proteinases / PRC2 methylates histones and DNA / HATs acetylate histones / PKMTs methylate histone lysines / Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks / pericentric heterochromatin formation / inner kinetochore / RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function / RMTs methylate histone arginines / Factors involved in megakaryocyte development and platelet production / Estrogen-dependent gene expression / Ub-specific processing proteases / oocyte maturation / nucleosomal DNA binding / nucleus organization / oogenesis / single fertilization / spermatid development / subtelomeric heterochromatin formation / chromosome, centromeric region / RNA polymerase II core promoter sequence-specific DNA binding / negative regulation of megakaryocyte differentiation / protein localization to CENP-A containing chromatin / CENP-A containing nucleosome / embryo implantation / response to hormone / multicellular organism growth / osteoblast differentiation / nucleosome assembly / structural constituent of chromatin / male gonad development / nucleosome / chromosome / chromatin organization / spermatogenesis / cell population proliferation / chromosome, telomeric region / RNA polymerase II cis-regulatory region sequence-specific DNA binding / protein heterodimerization activity / chromatin / protein-containing complex / DNA binding / nucleoplasm / nucleus / cytosol Similarity search - Function | ||||||||||||
Biological species | Mus musculus (house mouse) Homo sapiens (human) | ||||||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.874 Å | ||||||||||||
Authors | Taguchi, H. / Horikoshi, N. / Kurumizaka, H. | ||||||||||||
Funding support | Japan, 3items
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Citation | Journal: Nat Commun / Year: 2018 Title: Histone H3.3 sub-variant H3mm7 is required for normal skeletal muscle regeneration. Authors: Harada, A. / Maehara, K. / Ono, Y. / Taguchi, H. / Yoshioka, K. / Kitajima, Y. / Xie, Y. / Sato, Y. / Iwasaki, T. / Nogami, J. / Okada, S. / Komatsu, T. / Semba, Y. / Takemoto, T. / Kimura, ...Authors: Harada, A. / Maehara, K. / Ono, Y. / Taguchi, H. / Yoshioka, K. / Kitajima, Y. / Xie, Y. / Sato, Y. / Iwasaki, T. / Nogami, J. / Okada, S. / Komatsu, T. / Semba, Y. / Takemoto, T. / Kimura, H. / Kurumizaka, H. / Ohkawa, Y. | ||||||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5xm0.cif.gz | 319.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5xm0.ent.gz | 242 KB | Display | PDB format |
PDBx/mmJSON format | 5xm0.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/xm/5xm0 ftp://data.pdbj.org/pub/pdb/validation_reports/xm/5xm0 | HTTPS FTP |
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-Related structure data
Related structure data | 5xm1C 3av2S S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments:
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