5B0Y	Dna Binding Protein	date	Nov 13, 2015
title	Crystal Structure Of The Nucleosome Containing Histone H3 Wi Crotonylated Lysine 122
authors	Y.Suzuki, N.Horikoshi, H.Kurumizaka
compound		source
Molecule: Histone H3.2 Chain: A, E Synonym: Histone H3m,Histone H3o Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Hist2h3a, Hist2h3c, H3f2, H3fm, Hist2h3d Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Ptxb1
Molecule: Histone H4 Chain: B, F Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Hist1h4a, H4a, H4fa, Hist1h4b, H4i, H4fi, Hist1h4c, H4fg, Hist1h4d, H4b, H4fb, Hist1h4e, H4j, H4fj, Hist1h4f, H4fc, Hist1h4h, H4h, H4fh, Hist1h4i, H4m, H4fm, Hist1h4j, H4fe, Hist1h4k, H4d, H4fd, Hist1h4l, H4k, H4fk, Hist2h4a, H4f2, H4fn, Hist2h4, Hist2h4b, H4o, H4fo, Hist4h4; Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Jm109 (De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet15b
Molecule: Histone H2a Type 1-Be Chain: C, G Synonym: Histone H2a.2,Histone H2aa,Histone H2am Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Hist1h2ab, H2afm, Hist1h2ae, H2afa Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet15b
Molecule: Histone H2b Type 1-J Chain: D, H Synonym: Histone H2b.1,Histone H2b.R,H2br Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Hist1h2bj, H2bfr Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid Expression_system_plasmid: Phce
Molecule: Dna (146-Mer) Chain: I, J Engineered: Yes		Organism_scientific: Homo Sapiens Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Dh5alpha Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgem-T Easy
symmetry	Space Group: P 21 21 21	R_factor 0.210 R_Free 0.249
crystal cell	length a length b length c angle alpha angle beta angle gamma 99.635 108.773 171.142 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.56 Å
ligand	CL, KCR, MN	enzyme
Gene Ontology	Chain Function Process Component A, E C, G F, B H, D
Primary reference	Crystal structure of the nucleosome containing histone H3 with crotonylated lysine 122., Suzuki Y, Horikoshi N, Kato D, Kurumizaka H, Biochem Biophys Res Commun. 2016 Jan 15;469(3):483-9. doi:, 10.1016/j.bbrc.2015.12.041. Epub 2015 Dec 13. PMID:26694698

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (242 Kb) [Save to disk] Biological Unit Coordinates (5b0y.pdb1.gz) 234 Kb LPC: Ligand-Protein Contacts for 5B0Y CSU: Contacts of Structural Units for 5B0Y Structure Factors (1205 Kb) Retrieve 5B0Y in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5B0Y from S2C, [Save to disk] Re-refined 5b0y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5B0Y in 3D

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Visual 3D analysis of 5B0Y

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5b0y_F] [5b0y_G] [5b0y_A] [5b0y_B] [5b0y_J] [5b0y_C] [5b0y_E] [5b0y_D] [5b0y_H] [5b0y] [5b0y_I] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 5B0Y: [H2A] [H2B] [H3] [H4 ] by SMART

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