2QKB

Human RNase H catalytic domain mutant D210N in complex with 20-mer RNA/DNA hybrid


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.255
  • R-Value Work: 0.208

Literature

Macromolecules
Sequence Display for 2QKB

Classification: HYDROLASE / DNA / RNA

Total Structure Weight: 47432.82


Macromolecule Entities
Molecule Chains Length Organism Details
Ribonuclease H1 A, B 154 Homo sapiens EC#: 3.1.26.4 IUBMB
Fragment: C-terminal domain (residues 134-286)
Mutation: D210N
Gene Name(s): RNASEH1 Gene View RNH1 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
5'-R(*GP*GP*AP*GP*UP*GP*CP*GP*AP*CP*AP*CP*CP*UP*GP*AP*UP*UP*CP*C)-3') C 20 synthetic
5'-D(*DGP*DGP*DAP*DAP*DTP*DCP*DAP*DGP*DGP*DTP*DGP*DTP*DCP*DGP*DCP*DAP*DCP*DTP*DCP*DT)-3' D 20 synthetic

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EDO
Query on EDO

A, B 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (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: 2.4 Å
  • R-Value Free: 0.255
  • R-Value Work: 0.208
  • Space Group: P 32 2 1

Unit Cell:

Length (Å) Angle (°)
a = 109.99 α = 90.00
b = 109.99 β = 90.00
c = 67.25 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-07-10
  • Released Date: 2007-11-13
  • Deposition author(s): Nowotny, M., Gaidamakov, S.A., Ghirlando, R., Cerritelli, S.M., Crouch, R.J., Yang, W.

Revision History

  • Version 1_0: 2007-11-13

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Version format compliance