1XVK

X-ray strucutre of an Echinomycin-(GCGTACGC)2 complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.26 Å
  • R-Value Observed: 0.183

Literature

Macromolecules
Sequence Display for 1XVK

Classification: DNA / ANTIBIOTIC

Total Structure Weight: 3609.23


Macromolecule Entities
Molecule Chains Length Organism Details
ECHINOMYCIN B 8 Streptomyces echinatus Mutation: X3X, X7X
Macromolecule Entities
Molecule Chains Length Organism Details
5'-D(*GP*CP*GP*TP*AP*CP*GP*C)-3' A 8 synthetic

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

B 2-CARBOXYQUINOXALINE
C9 H6 N2 O2
UPUZGXILYFKSGE-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)
Biologically Interesting Molecules 1 Unique
ID Chains Name Type/Class 2D Diagram 3D Interactions
PRD_000491
Query on PRD_000491
B Echinomycin Cyclic depsipeptide /
Antibiotic
Ligand Explorer Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.26 Å
  • R-Value Observed: 0.183
  • Space Group: P 63 2 2

Unit Cell:

Length (Å) Angle (°)
a = 39.18 α = 90.00
b = 39.18 β = 90.00
c = 79.89 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-10-28
  • Released Date: 2005-04-12
  • Deposition author(s): Cuesta-Seijo, J.A., Sheldrick, G.M.

Revision History

  • Version 1_0: 2005-04-12

    Type: Initial release

  • Version 1_1: 2011-06-14

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance

  • Version 1_3: 2011-07-27

    Type: Atomic model, Database references, Derived calculations, Non-polymer description, Structure summary

  • Version 1_4: 2012-12-12

    Type: Other