1AOI Dna Binding Protein Dna date Jul 03, 1997
title Complex Between Nucleosome Core Particle (H3,H4,H2a,H2b) And 146 Bp Long Dna Fragment
authors K.Luger, A.W.Maeder, R.K.Richmond, D.F.Sargent, T.J.Richmond
compound source
Molecule: Palindromic 146 Bp Dna Repeat 89 From Human X- Chromosome Alpha Satellite Dna;
Chain: I, J
Engineered: Yes
Synthetic: Yes

Molecule: Histone H3
Chain: A, E
Fragment: Histone H3
Engineered: Yes

Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Expression_system: Escherichia Coli
Expression_system_taxid: 562

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

Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Other_details: Synthetic Gene, Optimized Codon Usage For Escherichia Coli;

Molecule: Histone H2a
Chain: C, G
Fragment: Histone H2a
Engineered: Yes

Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Histone H2b
Chain: D, H
Fragment: Histone H2b
Engineered: Yes
Mutation: Yes

Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.224 R_Free 0.302
crystal
cell
length a length b length c angle alpha angle beta angle gamma
106.040 181.780 110.120 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand MN enzyme
note 1AOI (Molecule of the Month:pdb7)
related structures by homologous chain: 1P3M, 1P3O
Gene
Ontology
ChainFunctionProcessComponent
A, E


C, G


F, B


H, D


Primary referenceCrystal structure of the nucleosome core particle at 2.8 A resolution., Luger K, Mader AW, Richmond RK, Sargent DF, Richmond TJ, Nature 1997 Sep 18;389(6648):251-60. PMID:9305837
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (231 Kb) [Save to disk]
  • Biological Unit Coordinates (1aoi.pdb1.gz) 226 Kb
  • LPC: Ligand-Protein Contacts for 1AOI
  • CSU: Contacts of Structural Units for 1AOI
  • Likely Quarternary Molecular Structure file(s) for 1AOI
  • Retrieve 1AOI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1AOI from S2C, [Save to disk]
  • View 1AOI 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 1AOI
  • 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 1AOI, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1aoia_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1aoib_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1aoic_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1aoid_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1aoie_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1aoif_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1aoig_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1aoih_, region H [Jmol] [rasmolscript] [script source]
  • Fold representative 1aoi 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: [1aoi_E] [1aoi_I] [1aoi_A] [1aoi_H] [1aoi_D] [1aoi_B] [1aoi_J] [1aoi_G] [1aoi_C] [1aoi_F] [1aoi]
  • SWISS-PROT database: [P06897] [P02281] [P02302] [P62799]
  • Domain organization of [H2A1_XENLA] [H2B11_XENLA] [H3L_XENLA] [H4_XENLA] by SWISSPFAM
  • Domains found in 1AOI: [H2A] [H2B] [H3] [H4 ] by SMART
  • Other resources with information on 1AOI
  • Community annotation for 1AOI 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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