6WZ5 Gene Regulation date May 13, 2020
title Bridging Of Double-Strand Dna Break Activates Parp2hpf1 To Chromatin
authors M.Halic, S.Bilokapic
compound source
Molecule: Histone H3.2
Chain: A, E
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
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
Chain: C, G
Engineered: Yes

Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Gene: Hist1h2aj, H2ac14, Loc494591, Xelaev_18003602mg
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: African Clawed Frog
Organism_taxid: 8355
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (153-Mer)
Chain: I
Engineered: Yes

Organism_scientific: Synthetic Construct
Organism_taxid: 32630
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (153-Mer)
Chain: J
Engineered: Yes

Organism_scientific: Synthetic Construct
Organism_taxid: 32630
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 2.20 Å
Gene
Ontology
ChainFunctionProcessComponent
A, E


C, G


F, B


H, D


Primary referenceBridging of DNA breaks activates PARP2-HPF1 to modify chromatin., Bilokapic S, Suskiewicz MJ, Ahel I, Halic M, Nature. 2020 Sep;585(7826):609-613. doi: 10.1038/s41586-020-2725-7. Epub 2020 Sep, 16. PMID:32939087
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (218 Kb) [Save to disk]
  • Biological Unit Coordinates (6wz5.pdb1.gz) 214 Kb
  • CSU: Contacts of Structural Units for 6WZ5
  • Retrieve 6WZ5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6WZ5 from S2C, [Save to disk]
  • View 6WZ5 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 6WZ5
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6wz5_H] [6wz5_E] [6wz5_A] [6wz5_J] [6wz5_F] [6wz5_B] [6wz5_C] [6wz5_D] [6wz5_I] [6wz5_G]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6WZ5
  • Community annotation for 6WZ5 at PDBWiki (http://pdbwiki.org)

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