3O3F

T. maritima RNase H2 D107N in complex with nucleic acid substrate and magnesium ions

Structural Biology Knowledgebase: 3O3F SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.244
  • R-Value Work: 0.191

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3O3F

Classification: HYDROLASE / DNA-RNA hybrid

Total Structure Weight: 32072.33


Macromolecule Entities
Molecule Chains Length Organism Details
Ribonuclease HII A 222 Thermotoga maritima EC#: 3.1.26.4 IUBMB
Mutation: D107N
Gene Name(s): rnhB TM_0915
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*GP*AP*AP*TP*CP*AP*GP*GP*TP*GP*TP*C)-3') C 12 synthetic
DNA/RNA (5'-D(*GP*AP*CP*AP*C)-R(P*C)-D(P*TP*GP*AP*TP*TP*C)-3') D 12 synthetic

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

A, D MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.244
  • R-Value Work: 0.191
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 105.06 α = 90.00
b = 48.57 β = 131.80
c = 78.39 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-07-24
  • Released Date: 2010-12-08
  • Deposition author(s): Rychlik, M.P., Chon, H., Cerritelli, S.M., Klimek, P., Crouch, R.J., Nowotny, M.

Revision History

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