1DFM

Crystal structure of restriction endonuclease BGLII complexed with DNA 16-mer

Structural Biology Knowledgebase: 1DFM SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.192

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1DFM

Classification: HYDROLASE / DNA

Total Structure Weight: 61934.70


Macromolecule Entities
Molecule Chains Length Organism Details
ENDONUCLEASE BGLII A, B 223 Bacillus subtilis EC#: 3.1.21.4 IUBMB
Fragment: BGLII
Gene Name(s): bglIIR
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*TP*AP*TP*TP*AP*TP*AP*GP*AP*TP*CP*TP*AP*TP*AP*A)-3') C, D 16 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
 
JSmol
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A, B L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.192
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 48.70 α = 90.00
b = 101.80 β = 90.00
c = 116.90 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-12-06
  • Released Date: 2000-02-21
  • Deposition author(s): Lukacs, C.M., Kucera, R., Schildkraut, I., Aggarwal, A.K.

Revision History

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