4HLI

DNA dodecamer containing 5-hydroxymethyl-cytosine

Structural Biology Knowledgebase: 4HLI SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.99 Å
  • R-Value Free: 0.328
  • R-Value Work: 0.252

Literature

Macromolecules
Sequence Display for 4HLI

Classification: DNA

Total Structure Weight: 7450.30

Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*CP*GP*(5HC)P*GP*AP*AP*TP*TP*CP*GP*CP*G)-3') A, B 12 Homo sapiens

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
K
Query on K

A POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
5HC
Query on 5HC
A, B DNA LINKING C10 H16 N3 O8 P DC

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.99 Å
  • R-Value Free: 0.328
  • R-Value Work: 0.252
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 25.17 α = 90.00
b = 40.59 β = 90.00
c = 65.40 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2012-10-17
  • Released Date: 2013-09-04
  • Deposition author(s): Spingler, B., Renciuk, D., Vorlickova, M.

Revision History

  • 2013-12-04
    Type: Citation | Details: Citation update