1MN7

NDP kinase mutant (H122G;N119S;F64W) in complex with aBAZTTP

Structural Biology Knowledgebase: 1MN7 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Free: 0.295
  • R-Value Work: 0.232

Literature

Macromolecules
Sequence Display for 1MN7

Classification: transferase

Total Structure Weight: 34549.41

Macromolecule Entities
Molecule Chains Length Organism Details
NDP kinase A, B 155 Dictyostelium discoideum EC#: 2.7.4.6 IUBMB
Mutation: F64W, N119S, H122G
Gene Name(s): ndkC-1 gip17 ndkB DDB_G0273069 ndkC-2 DDB_G0273805
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B 3'-AZIDO-3'-DEOXY-THYMIDINE-5'-ALPHA BORANO TRIPHOSPHATE
C10 H17 B N5 O12 P3
YRFDNFJEDDBNDW-NYNRLPRQSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Free: 0.295
  • R-Value Work: 0.232
  • Space Group: P 63
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 71.24 α = 90.00
b = 71.24 β = 90.00
c = 106.68 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-09-05
  • Released Date: 2002-10-02
  • Deposition author(s): gallois-montbrun, s., schneider, b., chen, y., giacomoni-fernandes, v., mulard, l., morera, s., janin, j., deville-bonne, d., veron, m.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values