1EQZ Structural Protein Dna date Apr 06, 2000
title X-Ray Structure Of The Nucleosome Core Particle At 2.5 A Res
authors B.L.Hanson, J.M.Harp, D.E.Timm, G.J.Bunick
compound source
Molecule: 146 Nucleotides Long Dna
Chain: I, J
Engineered: Yes
Other_details: Ends Mutated To Eco Rv Compatible Blunt Ends Ri Linker Added At Alu I Site Of 5' Half Of Native Nucleoso Fragment;
Synthetic: Yes
Other_details: 146 Bp Dna Palindrome Based On 5' Half Of Nu Phasing Sequence Of Alpha Satellite Dna From Human X Chromo H1 Repeat;

Molecule: Protein (Histone H2a)
Chain: A, E
Other_details: Subunit Of Salt-Extracted Histone Octamer

Organism_scientific: Gallus Gallus
Organism_common: Chicken
Organism_taxid: 9031
Tissue: Blood
Organelle: Erythrocyte Nucleus

Molecule: Protein (Histone H2b)
Chain: B, F
Other_details: Subunit Of Salt-Extracted Histone Octamer

Organism_scientific: Gallus Gallus
Organism_common: Chicken
Organism_taxid: 9031
Tissue: Blood
Organelle: Erythrocyte Nucleus

Molecule: Protein (Histone H3)
Chain: C, G
Other_details: Subunit Of Salt-Extracted Histone Octamer

Organism_scientific: Gallus Gallus
Organism_common: Chicken
Organism_taxid: 9031
Tissue: Blood
Organelle: Erythrocyte Nucleus

Molecule: Protein (Histone H4)
Chain: D, H
Other_details: Subunit Of Salt-Extracted Histone Octamer

Organism_scientific: Gallus Gallus
Organism_common: Chicken
Organism_taxid: 9031
Tissue: Blood
Organelle: Erythrocyte Nucleus
symmetry Space Group: P 21 21 21
R_factor 0.219 R_Free 0.282
crystal
cell
length a length b length c angle alpha angle beta angle gamma
105.280 109.710 181.120 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand CAC, CL, K, MN enzyme
related structures by homologous chain: 1F66, 1M18
Gene
Ontology
ChainFunctionProcessComponent
A, E


C, G


F, B


H, D


Primary referenceAsymmetries in the nucleosome core particle at 2.5 A resolution., Harp JM, Hanson BL, Timm DE, Bunick GJ, Acta Crystallogr D Biol Crystallogr 2000 Dec;56 Pt 12:1513-34. PMID:11092917
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (276 Kb) [Save to disk]
  • Biological Unit Coordinates (1eqz.pdb1.gz) 269 Kb
  • LPC: Ligand-Protein Contacts for 1EQZ
  • CSU: Contacts of Structural Units for 1EQZ
  • Likely Quarternary Molecular Structure file(s) for 1EQZ
  • Retrieve 1EQZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1EQZ from S2C, [Save to disk]
  • View 1EQZ 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 1EQZ
  • 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 1EQZ, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1eqza_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1eqzb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1eqzc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1eqzd_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1eqze_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1eqzf_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1eqzg_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1eqzh_, region H [Jmol] [rasmolscript] [script source]
  • Fold representative 1eqz 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: [1eqz_D] [1eqz_C] [1eqz_G] [1eqz_B] [1eqz_I] [1eqz_H] [1eqz_J] [1eqz_E] [1eqz_A] [1eqz] [1eqz_F]
  • SWISS-PROT database: [P02263] [P0C1H5] [P84229] [P62801]
  • Domain organization of [H2A4_CHICK] [H2B7_CHICK] [H32_CHICK] [H4_CHICK] by SWISSPFAM
  • Domains found in 1EQZ: [H2A] [H2B] [H3] [H4 ] by SMART
  • Other resources with information on 1EQZ
  • Community annotation for 1EQZ 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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