1ND4

Crystal structure of aminoglycoside-3'-phosphotransferase-IIa


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.206

Literature

Macromolecules
Sequence Display for 1ND4

Classification: TRANSFERASE

Total Structure Weight: 59339.26

Macromolecule Entities
Molecule Chains Length Organism Details
Aminoglycoside 3'-phosphotransferase A, B 264 Klebsiella pneumoniae EC#: 2.7.1.95 IUBMB
Gene Name(s): neo kan nptII
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
KAN
Query on KAN

A, B KANAMYCIN A
C18 H36 N4 O11
SBUJHOSQTJFQJX-NOAMYHISSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACT
Query on ACT

A, B ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
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)
NA
Query on NA

A, B SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.206
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 43.05 α = 90.00
b = 101.89 β = 105.58
c = 71.97 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-12-06
  • Released Date: 2003-09-16
  • Deposition author(s): Nurizzo, D., Shewry, S.C., Baker, E.N., Smith, C.A.

Revision History

  • Version 1_0: 2003-09-16

    Type: Initial release

  • Version 1_1: 2008-04-28

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance