1M0E

ZEBULARINE: A NOVEL DNA METHYLATION INHIBITOR THAT FORMS A COVALENT COMPLEX WITH DNA METHYLTRANSFERASE

Structural Biology Knowledgebase: 1M0E SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.177

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1M0E

Classification: TRANSFERASE / DNA

Total Structure Weight: 44738.74


Macromolecule Entities
Molecule Chains Length Organism Details
Modification methylase HhaI A 327 Haemophilus haemolyticus EC#: 2.1.1.37 IUBMB
Gene Name(s): hhaIM
Macromolecule Entities
Molecule Chains Length Organism Details
5'-D(P*CP*CP*AP*TP*GP*CP*GP*CP*TP*GP*AP*C)-3' C 12 synthetic
5'-D(P*GP*TP*CP*AP*GP*(Z)P*GP*CP*AP*TP*GP*G)-3' D 12 synthetic

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SAH
Query on SAH

A S-ADENOSYL-L-HOMOCYSTEINE
C14 H20 N6 O5 S
ZJUKTBDSGOFHSH-WFMPWKQPSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
Z
Query on Z
D DNA LINKING C9 H13 N2 O7 P DC

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.177
  • Space Group: H 3 2

Unit Cell:

Length (Å) Angle (°)
a = 96.19 α = 90.00
b = 96.19 β = 90.00
c = 315.75 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-06-12
  • Released Date: 2002-09-18
  • Deposition author(s): Zhou, L., Cheng, X., Connolly, B.A., Dickman, M.J., Hurd, P.J., Hornby, D.P.

Revision History

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