2VLA

Crystal structure of restriction endonuclease BpuJI recognition domain in complex with cognate DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.3 Å
  • R-Value Free: 0.166
  • R-Value Work: 0.138

Literature

Macromolecules
Sequence Display for 2VLA

Classification: HYDROLASE

Total Structure Weight: 41100.05


Macromolecule Entities
Molecule Chains Length Organism Details
RESTRICTION ENDONUCLEASE R.BPUJI A 285 Bacillus pumilus EC#: 3.1.21.4 IUBMB
Fragment: RECOGNITION DOMAIN, RESIDUES 1-285
Gene Name(s): bpuJIR
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
5'-D(*GP*GP*TP*AP*CP*CP*CP*GP*TP*GP *GP*A)-3' L 12 synthetic
5'-D(*TP*CP*CP*AP*CP*GP*GP*GP*TP*AP *CP*C)-3' M 12 synthetic

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
PG6
Query on PG6

A 1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-METHOXY-ETHOXY]- ETHOXY}-ETHANE
C12 H26 O6
DMDPGPKXQDIQQG-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

A SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.3 Å
  • R-Value Free: 0.166
  • R-Value Work: 0.138
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 56.29 α = 90.00
b = 167.51 β = 90.00
c = 43.85 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-01-11
  • Released Date: 2008-05-06
  • Deposition author(s): Sukackaite, R., Grazulis, S., Bochtler, M., Siksnys, V.

Revision History

  • Version 1_0: 2008-05-06

    Type: Initial release

  • Version 1_1: 2011-05-08

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance