2CDQ

CRYSTAL STRUCTURE OF ARABIDOPSIS THALIANA ASPARTATE KINASE COMPLEXED WITH LYSINE AND S-ADENOSYLMETHIONINE

Structural Biology Knowledgebase: 2CDQ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.244
  • R-Value Work: 0.202

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2CDQ

Classification: TRANSFERASE

Total Structure Weight: 113607.80

Macromolecule Entities
Molecule Chains Length Organism Details
ASPARTOKINASE A, B 510 Arabidopsis thaliana EC#: 2.7.2.4 IUBMB
Gene Name(s): AK1 Gene View AK AK-LYS1 At5g13280 T31B5.100

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

A, B S-ADENOSYLMETHIONINE
C15 H22 N6 O5 S
MEFKEPWMEQBLKI-FCKMPRQPSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
TAR
Query on TAR

A, B D(-)-TARTARIC ACID
C4 H6 O6
FEWJPZIEWOKRBE-LWMBPPNESA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
LYS
Query on LYS

A, B LYSINE
C6 H15 N2 O2
KDXKERNSBIXSRK-YFKPBYRVSA-O
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.244
  • R-Value Work: 0.202
  • Space Group: I 41
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 117.34 α = 90.00
b = 117.34 β = 90.00
c = 255.28 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-01-26
  • Released Date: 2006-05-30
  • Deposition author(s): Mas-Droux, C., Curien, G., Robert-Genthon, M., Laurencin, M., Ferrer, J.L., Dumas, R.

Revision History

  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor
  • 2011-07-13
    Type: Version format compliance | Details: Compliance with PDBx exchange dictionary V4