4HX9

Designed Phosphodeoxyribosyltransferase

Structural Biology Knowledgebase: 4HX9 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.68 Å
  • R-Value Free: 0.250
  • R-Value Work: 0.195

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4HX9

Classification: TRANSFERASE

Total Structure Weight: 146705.75

Macromolecule Entities
Molecule Chains Length Organism Details
Nucleoside deoxyribosyltransferase A, B, C..., D, E, F, G, HA, B, C, D, E, F, G, H 157 Lactobacillus leichmannii EC#: 2.4.2.6 IUBMB
Mutation: F13R, E91Q, D92G, V93T, N123S
Gene Name(s): ntd

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
PG4
Query on PG4

A, B, D, F TETRAETHYLENE GLYCOL
C8 H18 O5
UWHCKJMYHZGTIT-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B, C, D, E, F, G, H SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.68 Å
  • R-Value Free: 0.250
  • R-Value Work: 0.195
  • Space Group: I 21 3
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 218.45 α = 90.00
b = 218.45 β = 90.00
c = 218.45 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-11-09
  • Released Date: 2013-01-16
  • Deposition author(s): Kaminski, P.A., Labesse, G.

Revision History

  • 2013-03-20
    Type: Citation | Details: Citation update
  • 2013-02-13
    Type: Citation | Details: Citation update