1ID3	Structural Protein Dna	date	Apr 03, 2001
title	Crystal Structure Of The Yeast Nucleosome Core Particle Reve Fundamental Differences In Inter-Nucleosome Interactions
authors	C.L.White, R.K.Suto, K.Luger
compound		source
Molecule: Palindromic 146bp Dna Fragment Chain: I, J Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Alpha Sat Dna Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Hb101 Expression_system_vector_type: Plasmid Expression_system_plasmid: Puc
Molecule: Histone H3 Chain: A, E Engineered: Yes		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 4932 Gene: Histone H3 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21 De3 Plyss Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet
Molecule: Histone H4 Chain: B, F Engineered: Yes		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 4932 Gene: Histone H4 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21 De3 Plyss Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet
Molecule: Histone H2a.1 Chain: C, G Engineered: Yes		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 4932 Gene: Histone H2a Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21 De3 Plyss Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet
Molecule: Histone H2b.2 Chain: D, H Engineered: Yes		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 4932 Gene: Histone H2b Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21 De3 Plyss Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet
symmetry	Space Group: P 21 21 21	R_factor 0.223 R_Free 0.292
crystal cell	length a length b length c angle alpha angle beta angle gamma 104.922 110.398 192.617 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	3.10 Å
ligand	MN	enzyme
Gene Ontology	Chain Function Process Component A, E C, G F, B H, D
Primary reference	Structure of the yeast nucleosome core particle reveals fundamental changes in internucleosome interactions., White CL, Suto RK, Luger K, EMBO J 2001 Sep 17;20(18):5207-18. PMID:11566884

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (224 Kb) [Save to disk] Biological Unit Coordinates (1id3.pdb1.gz) 217 Kb LPC: Ligand-Protein Contacts for 1ID3 CSU: Contacts of Structural Units for 1ID3 Likely Quarternary Molecular Structure file(s) for 1ID3 Structure Factors (302 Kb) Retrieve 1ID3 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1ID3 from S2C, [Save to disk] Re-refined 1id3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1ID3 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 1ID3

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 3D motif for 1ID3, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1id3a_, region A [Jmol] [rasmolscript] [script source]     - Domain d1id3b_, region B [Jmol] [rasmolscript] [script source]     - Domain d1id3c_, region C [Jmol] [rasmolscript] [script source]     - Domain d1id3d_, region D [Jmol] [rasmolscript] [script source]     - Domain d1id3e_, region E [Jmol] [rasmolscript] [script source]     - Domain d1id3f_, region F [Jmol] [rasmolscript] [script source]     - Domain d1id3g_, region G [Jmol] [rasmolscript] [script source]     - Domain d1id3h_, region H [Jmol] [rasmolscript] [script source] 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: [1id3_E] [1id3_H] [1id3_G] [1id3_B] [1id3] [1id3_F] [1id3_D] [1id3_J] [1id3_A] [1id3_C] [1id3_I] SWISS-PROT database: [P04911] [P02294] [P61830] [P02309] Domain organization of [H2A1_YEAST] [H2B2_YEAST] [H3_YEAST] [H4_YEAST] by SWISSPFAM Domains found in 1ID3: [H2A] [H2B] [H3] [H4 ] by SMART

Other resources with information on 1ID3

Community annotation for 1ID3 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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