1F8Y

CRYSTAL STRUCTURE ANALYSIS OF NUCLEOSIDE 2-DEOXYRIBOSYLTRANSFERASE COMPLEXED WITH 5-METHYL-2'-DEOXYPSEUDOURIDINE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.218
  • R-Value Work: 0.160

Literature

Macromolecules
Sequence Display for 1F8Y

Classification: TRANSFERASE

Total Structure Weight: 36681.16

Macromolecule Entities
Molecule Chains Length Organism Details
NUCLEOSIDE 2-DEOXYRIBOSYLTRANSFERASE A, B 157 Lactobacillus leichmannii EC#: 2.4.2.6 IUBMB
Gene Name(s): ntd
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
5MD
Query on 5MD

A, B 5-METHYL-2'-DEOXYPSEUDOURIDINE
C10 H14 N2 O5
AMDJRICBYOAHBZ-XLPZGREQSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.218
  • R-Value Work: 0.160
  • Space Group: I 21 3

Unit Cell:

Length (Å) Angle (°)
a = 149.60 α = 90.00
b = 149.60 β = 90.00
c = 149.60 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-07-05
  • Released Date: 2000-08-09
  • Deposition author(s): Armstrong, S.R., Cook, W.J., Short, S.A., Ealick, S.E.

Revision History

  • Version 1_0: 2000-08-09

    Type: Initial release

  • Version 1_1: 2008-04-27

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance