4WU9 Structural Protein Dna date Oct 31, 2014
title Structure Of Cisptnap-Ncp145
authors E.Y.D.Chua, G.E.Davey, C.F.Chin, P.Droge, W.H.Ang, C.A.Davey
compound source
Molecule: Histone H3.2
Chain: A, E
Engineered: Yes
Mutation: 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
Engineered: Yes

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

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

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

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

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

Molecule: Dna (145-Mer)
Chain: I
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (145-Mer)
Chain: J
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 21 21 21
R_factor 0.216 R_Free 0.273
crystal
cell
length a length b length c angle alpha angle beta angle gamma
106.570 109.330 181.280 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.60 Å
ligand CX8, MG, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, E


C, G


F, B


H, D


Primary referenceStereochemical control of nucleosome targeting by platinum-intercalator antitumor agents., Chua EY, Davey GE, Chin CF, Droge P, Ang WH, Davey CA, Nucleic Acids Res. 2015 Jun 23;43(11):5284-96. doi: 10.1093/nar/gkv356. Epub 2015, Apr 27. PMID:25916851
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (252 Kb) [Save to disk]
  • Biological Unit Coordinates (4wu9.pdb1.gz) 245 Kb
  • LPC: Ligand-Protein Contacts for 4WU9
  • CSU: Contacts of Structural Units for 4WU9
  • Structure Factors (1151 Kb)
  • Retrieve 4WU9 in mmCIF format [Save to disk]
  • Re-refined 4wu9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4WU9 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 4WU9
  • 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 4wu9 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4wu9_E] [4wu9_J] [4wu9_G] [4wu9_F] [4wu9_D] [4wu9_A] [4wu9] [4wu9_H] [4wu9_I] [4wu9_B] [4wu9_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4WU9: [H2A] [H2B] [H3] [H4 ] by SMART
  • Other resources with information on 4WU9
  • Community annotation for 4WU9 at PDBWiki (http://pdbwiki.org)

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