6XFD Dna date Jun 15, 2020
title Self-Assembly Of A 3d Dna Crystal Lattice (4x5 Junction Vers Containing The J20 Immobile Holliday Junction
authors C.R.Simmons, T.Macculloch, N.Stephanopoulos, H.Yan
compound source
Molecule: Dna (5'-D(Gpapgpcpapgpapcpgptpg)-3')
Chain: A
Engineered: Yes
 Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'-D(Papcpapgpcpapcptpcpa)-3')
Chain: B
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'-D(Pcpaptpgpt)-3')
Chain: C
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'-D(Tpcptpgpapgptpgpcpcpgptpcp 3');
Chain: D
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 32 2 1
R_factor 0.223 R_Free 0.286
crystal
cell
length a length b length c angle alpha angle beta angle gamma
67.551 67.551 60.397 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.10 Å
ligand CAC enzyme
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (21 Kb) [Save to disk]
  • Biological Unit Coordinates (6xfd.pdb1.gz) 17 Kb
  • LPC: Ligand-Protein Contacts for 6XFD
  • CSU: Contacts of Structural Units for 6XFD
  • Structure Factors (75 Kb)
  • Retrieve 6XFD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6XFD from S2C, [Save to disk]
    • View 6XFD 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 6XFD
  • 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: [6xfd_A] [6xfd_D] [6xfd_C] [6xfd_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6XFD
  • Community annotation for 6XFD at PDBWiki (http://pdbwiki.org)

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