1KGK

Direct Observation of a Cytosine Analog that Forms Five Hydrogen Bonds to Guanosine; Guanyl G-Clamp

Structural Biology Knowledgebase: 1KGK SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.0 Å
  • R-Value Work:

Literature

Macromolecules
Sequence Display for 1KGK

Classification: DNA

Total Structure Weight: 6831.00

Macromolecule Entities
Molecule Chains Length Organism Details
5'-D(*GP*(GCK)P*GP*TP*AP*TP*AP*CP*GP*C)-3' A, B 10 synthetic

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

A SPERMINE (FULLY PROTONATED FORM)
C10 H30 N4
PFNFFQXMRSDOHW-UHFFFAOYSA-R
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MOE
Query on MOE

A, B METHOXY-ETHOXYL
C3 H7 O2
ASQUQUOEFDHYGP-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
GCK
Query on GCK
A, B DNA LINKING C18 H24 N6 O9 P DC

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.0 Å
  • R-Value Observed:
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 24.52 α = 90.00
b = 43.02 β = 90.00
c = 46.68 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2001-11-27
  • Released Date: 2001-12-21
  • Deposition author(s): Wilds, C.J., Maier, M.A., Tereshko, V., Manoharan, M., Egli, M.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4