6FTX Motor Protein date Feb 25, 2018
title Structure Of The Chromatin Remodelling Enzyme Chd1 Bound To Ubiquitinylated Nucleosome
authors R.Sundaramoorthy, T.Owen-Hughes, D.G.Norman, A.Hughes
compound source
Molecule: Histone H3
Chain: A
Engineered: Yes
Organism_scientific: Petromyzon Marinus
Organism_common: Sea Lamprey
Organism_taxid: 7757
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

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

Molecule: Histone H2b
Chain: D, H
Engineered: Yes

Organism_scientific: Xenopus Tropicalis
Organism_common: Western Clawed Frog
Organism_taxid: 8364
Gene: Loc108648866
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Histone H3.3c
Chain: E
Engineered: Yes

Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Gene: H3f3c
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (159-Mer)
Chain: I
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (160-Mer)
Chain: J
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Polyubiquitin-B
Chain: N, O
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ubb
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Chromatin-Remodeling Atpase
Chain: W
Engineered: Yes

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Gene: Chd1, Sckg_4184
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 4.50 Å
ligand ADP, BEF enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, E


C, G


F, B


H, D


W


Primary referenceStructure of the chromatin remodelling enzyme Chd1 bound to a ubiquitinylated nucleosome., Sundaramoorthy R, Hughes AL, El-Mkami H, Norman DG, Ferreira H, Owen-Hughes T, Elife. 2018 Aug 6;7. pii: 35720. doi: 10.7554/eLife.35720. PMID:30079888
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (427 Kb) [Save to disk]
  • Biological Unit Coordinates (6ftx.pdb1.gz) 418 Kb
  • LPC: Ligand-Protein Contacts for 6FTX
  • CSU: Contacts of Structural Units for 6FTX
  • Retrieve 6FTX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6FTX from S2C, [Save to disk]
  • View 6FTX 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 6FTX
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6ftx from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6ftx_O] [6ftx_H] [6ftx_E] [6ftx_C] [6ftx_W] [6ftx_F] [6ftx_A] [6ftx_N] [6ftx_J] [6ftx_D] [6ftx_B] [6ftx_G] [6ftx_I]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6FTX
  • Community annotation for 6FTX at PDBWiki (http://pdbwiki.org)

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