1DCT

DNA (CYTOSINE-5) METHYLASE FROM HAEIII COVALENTLY BOUND TO DNA

Structural Biology Knowledgebase: 1DCT SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.326
  • R-Value Work: 0.226

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1DCT

Classification: TRANSFERASE / DNA

Total Structure Weight: 96494.62


Macromolecule Entities
Molecule Chains Length Organism Details
PROTEIN (MODIFICATION METHYLASE HAEIII) A, B 324 Haemophilus influenzae EC#: 2.1.1.37 IUBMB
Gene Name(s): haeIIIM
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*AP*CP*CP*AP*GP*CP*AP*GP*GP*(C49)P*CP*AP*CP*CP*AP*GP*TP*G)-3') F, G 18 synthetic
DNA (5'-D(*TP*CP*AP*CP*TP*GP*GP*TP*GP*GP*(C5M)P*CP*TP*GP*CP*TP*GP*G)-3') M, N 18 synthetic

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

A, B CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
C49
Query on C49
F, G DNA LINKING C10 H15 F N3 O7 P S DC
5CM
Query on 5CM
M, N DNA LINKING C10 H16 N3 O7 P DC

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.326
  • R-Value Work: 0.226
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 57.57 α = 90.00
b = 108.04 β = 90.00
c = 155.79 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1995-05-17
  • Released Date: 1995-09-15
  • Deposition author(s): Reinisch, K.M., Chen, L., Verdine, G.L., Lipscomb, W.N.

Revision History

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