2F8N Structural Protein Dna date Dec 02, 2005
title 2.9 Angstrom X-Ray Structure Of Hybrid Macroh2a Nucleosomes
authors S.Chakravarthy, K.Luger
compound source
Molecule: Alpha-Satellite Dna (146 Bp)
Chain: I, J
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Puc19

Molecule: Histone H3.1
Chain: A, E
Engineered: Yes

Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21-De3-Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet3a

Molecule: Histone H4
Chain: B, F
Engineered: Yes

Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21-De3-Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet3a

Molecule: Histone 3, H2ba
Chain: D
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21-De3-Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet3a

Molecule: Histone H2b.1
Chain: H
Engineered: Yes

Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21-De3-Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet3a

Molecule: Core Histone Macro-H2a.1
Chain: G
Fragment: Residues 0-119
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21-De3-Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet3a

Molecule: Histone H2a Type 1
Chain: K
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21-De3-Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet15b
symmetry Space Group: P 21 21 21
R_factor 0.217 R_Free 0.269
crystal
cell
length a length b length c angle alpha angle beta angle gamma
106.145 109.272 176.273 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.90 Å
Gene
Ontology
ChainFunctionProcessComponent
A, E


D


F, B


G


H


K


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (248 Kb) [Save to disk]
  • Biological Unit Coordinates (2f8n.pdb1.gz) 241 Kb
  • CSU: Contacts of Structural Units for 2F8N
  • Likely Quarternary Molecular Structure file(s) for 2F8N
  • Structure Factors (605 Kb)
  • Retrieve 2F8N in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2F8N from S2C, [Save to disk]
  • Re-refined 2f8n structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2F8N in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 2F8N
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2F8N, from MSDmotif at EBI
  • Fold representative 2f8n from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2f8n_K] [2f8n_B] [2f8n_I] [2f8n_D] [2f8n_G] [2f8n_H] [2f8n_J] [2f8n_E] [2f8n] [2f8n_A] [2f8n_F]
  • SWISS-PROT database: [Q8CGP6] [O75367] [P02281] [Q9D2U9] [P84233] [P62799]
  • Domain organization of [H2A1H_MOUSE] [H2AY_HUMAN] [H2B11_XENLA] [H2B3A_MOUSE] [H32_XENLA] [H4_XENLA] by SWISSPFAM
  • Domains found in 2F8N: [H2A] [H2B] [H3] [H4 ] by SMART
  • Other resources with information on 2F8N
  • Community annotation for 2F8N at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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