1F66 Structural Protein Dna date Jun 20, 2000
title 2.6 A Crystal Structure Of A Nucleosome Core Particle Containing The Variant Histone H2a.Z
authors R.K.Suto, M.J.Clarkson, D.J.Tremethick, K.Luger
compound source
Molecule: Palindromic 146 Base Pair Dna Fragment
Chain: I, J
Engineered: Yes
Synthetic: Yes

Molecule: Histone H3
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_vector_type: Plasmid
Expression_system_plasmid: Pet

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

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet

Molecule: Histone H2a.Z
Chain: C, G
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: Puc

Molecule: Histone H2b
Chain: D, 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_vector_type: Plasmid
Expression_system_plasmid: Pet
symmetry Space Group: P 21 21 21
R_factor 0.193 R_Free 0.249
crystal
cell
length a length b length c angle alpha angle beta angle gamma
105.660 183.207 109.922 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.60 Å
ligand MN enzyme
related structures by homologous chain: 1EQZ, 1KX4
Gene
Ontology
ChainFunctionProcessComponent
A, E


C, G


F, B


H, D


Primary referenceCrystal structure of a nucleosome core particle containing the variant histone H2A.Z., Suto RK, Clarkson MJ, Tremethick DJ, Luger K, Nat Struct Biol 2000 Dec;7(12):1121-4. PMID:11101893
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (257 Kb) [Save to disk]
  • Biological Unit Coordinates (1f66.pdb1.gz) 249 Kb
  • LPC: Ligand-Protein Contacts for 1F66
  • CSU: Contacts of Structural Units for 1F66
  • Likely Quarternary Molecular Structure file(s) for 1F66
  • Retrieve 1F66 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1F66 from S2C, [Save to disk]
  • View 1F66 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 1F66
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1F66, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1f66a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1f66b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1f66c_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1f66d_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1f66e_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1f66f_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1f66g_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1f66h_, region H [Jmol] [rasmolscript] [script source]
  • Fold representative 1f66 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1f66_D] [1f66_G] [1f66] [1f66_J] [1f66_C] [1f66_H] [1f66_I] [1f66_E] [1f66_B] [1f66_A] [1f66_F]
  • SWISS-PROT database: [P0C0S5] [P02281] [P84233] [P62806]
  • Domain organization of [H2AZ_HUMAN] [H2B11_XENLA] [H32_XENLA] [H4_MOUSE] by SWISSPFAM
  • Domains found in 1F66: [H2A] [H2B] [H3] [H4 ] by SMART
  • Other resources with information on 1F66
  • Community annotation for 1F66 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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