3X1T Structural Protein Dna date Nov 27, 2014
title Crystal Structure Of Nucleosome Core Particle Consisting Of Testis Specific Histone Variants H2aa And H2ba
authors P.Sivaraman, T.S.Kumarevel
compound source
Molecule: Dna (146-Mer)
Chain: I, J
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic
Organism_taxid: 32630

Molecule: Histone H3.1
Chain: A, E
Synonym: Histone H3a, Histone H3b, Histone H3c, Histone Histone H3f, Histone H3h, Histone H3i, Histone H3j, His Histone H3l;
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

Molecule: Histone H4
Chain: B, F
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

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

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

Molecule: Histone H2b Type 1-A
Chain: D, H
Synonym: Histone H2b, Testis, Testis-Specific Histone H2b
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
symmetry Space Group: P 21 21 21
R_factor 0.209 R_Free 0.266
crystal
cell
length a length b length c angle alpha angle beta angle gamma
105.771 109.597 181.597 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.81 Å
ligand CL, MN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, E


C, G


F, B


H, D


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (252 Kb) [Save to disk]
  • Biological Unit Coordinates (3x1t.pdb1.gz) 246 Kb
  • LPC: Ligand-Protein Contacts for 3X1T
  • CSU: Contacts of Structural Units for 3X1T
  • Structure Factors (687 Kb)
  • Retrieve 3X1T in mmCIF format [Save to disk]
  • Re-refined 3x1t structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3X1T 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 3X1T
  • 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
  • Fold representative 3x1t from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3x1t_D] [3x1t_I] [3x1t] [3x1t_F] [3x1t_G] [3x1t_A] [3x1t_C] [3x1t_B] [3x1t_H] [3x1t_E] [3x1t_J]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3X1T: [H2A] [H2B] [H3] [H4 ] by SMART
  • Other resources with information on 3X1T
  • Community annotation for 3X1T at PDBWiki (http://pdbwiki.org)

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