5LJ4

Crystal structure of DNA duplex containing ZP base pair

  • Classification: DNA
  • Organism(s): Homo sapiens

  • Deposited: 2016-07-17 Released: 2017-05-03 
  • Deposition Author(s): Agnew, C.R.J., Brady, R.L.
  • Funding Organization(s): Biotechnology and Biological Sciences Research Council 

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.17 Å
  • R-Value Free: 0.275 
  • R-Value Work: 0.220 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural Basis of the Mispairing of an Artificially Expanded Genetic Information System

Reichenbach, L.F.Sobri, A.A.Zaccai, N.R.Agnew, C.R.J.Burton, N.Eperon, L.P.de Ornellas, S.Eperon, I.C.Brady, R.L.Burley, G.A.

(2016) Chem 1: 946-958


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsLengthOrganism
ODN2A,B12Homo sapiens
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CA
Query on CA

Download SDF File 
Download CCD File 
A, B
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  2 Unique
IDChainsTypeFormula2D DiagramParent
1W5
Query on 1W5
A, B
DNA linkingC10 H14 N3 O9 P

--

1WA
Query on 1WA
A, B
DNA LINKINGC10 H16 N5 O7 P

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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.17 Å
  • R-Value Free: 0.275 
  • R-Value Work: 0.220 
  • Space Group: H 3
Unit Cell:
Length (Å)Angle (°)
a = 41.700α = 90.00
b = 41.700β = 90.00
c = 99.932γ = 120.00
Software Package:
Software NamePurpose
PHASERphasing
REFMACrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationCountryGrant Number
Biotechnology and Biological Sciences Research CouncilUnited KingdomBB/J02080X/1

Revision History 

  • Version 1.0: 2017-05-03
    Type: Initial release
  • Version 1.1: 2017-05-17
    Type: Database references
  • Version 1.2: 2017-08-30
    Type: Author supporting evidence