4J8U Structural Protein Dna date Feb 15, 2013
title X-Ray Structure Of Ncp145 With Chlorido(Eta-6-P-Cymene)(N-Ph Pyridinecarbothioamide)Osmium(II)
authors Z.Adhireksan, C.A.Davey
compound source
Molecule: Histone H3.2
Chain: A, E
Engineered: Yes
Organism_scientific: Xenopus Laevis
Organism_common: Clawed Frog,Common Platanna,Platanna
Organism_taxid: 8355
Expression_system: Escherichia Coli
Expression_system_taxid: 562

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

Organism_scientific: Xenopus Laevis
Organism_common: Clawed Frog,Common Platanna,Platanna
Organism_taxid: 8355
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Histone H2a Type 1
Chain: C, G
Engineered: Yes

Organism_scientific: Xenopus Laevis
Organism_common: Clawed Frog,Common Platanna,Platanna
Organism_taxid: 8355
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Histone H2b 1.1
Chain: D, H
Synonym: H2b1.1
Engineered: Yes

Organism_scientific: Xenopus Laevis
Organism_common: Clawed Frog,Common Platanna,Platanna
Organism_taxid: 8355
Gene: Hist1h2aj, Loc494591
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna
Chain: I
Synonym: H2b1.1
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna
Chain: J
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 21 21 21
R_factor 0.252 R_Free 0.280
crystal
cell
length a length b length c angle alpha angle beta angle gamma
106.710 109.930 181.840 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.38 Å
ligand ELJ, MG, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, E


C, G


F, B


H, D


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (249 Kb) [Save to disk]
  • Biological Unit Coordinates (4j8u.pdb1.gz) 241 Kb
  • LPC: Ligand-Protein Contacts for 4J8U
  • CSU: Contacts of Structural Units for 4J8U
  • Structure Factors (1167 Kb)
  • Retrieve 4J8U in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4J8U from S2C, [Save to disk]
  • Re-refined 4j8u structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4J8U 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 4J8U
  • 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
  • 3D motif for 4J8U, from MSDmotif at EBI
  • Fold representative 4j8u from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4j8u_E] [4j8u_F] [4j8u_C] [4j8u_I] [4j8u_A] [4j8u_H] [4j8u_G] [4j8u_J] [4j8u_B] [4j8u_D] [4j8u]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4J8U: [H2A] [H2B] [H3] [H4 ] by SMART
  • Other resources with information on 4J8U
  • Community annotation for 4J8U at PDBWiki (http://pdbwiki.org)

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