2E2P

Crystal structure of Sulfolobus tokodaii hexokinase in complex with ADP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.226
  • R-Value Work: 0.183

Literature

Macromolecules
Sequence Display for 2E2P

Classification: TRANSFERASE

Total Structure Weight: 65695.09

Macromolecule Entities
Molecule Chains Length Organism Details
HEXOKINASE A, B 299 Sulfolobus tokodaii EC#: 2.7.1.1 IUBMB
Gene Name(s): STK_23540
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EPE
Query on EPE

B 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
HEPES (Synonym)
C8 H18 N2 O4 S
JKMHFZQWWAIEOD-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
ADP N/A in BindingDB
Ki: 18000 nM  BindingMOAD
Ki: 18000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.226
  • R-Value Work: 0.183
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 82.68 α = 90.00
b = 50.04 β = 114.80
c = 83.19 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-11-15
  • Released Date: 2007-01-16
  • Deposition author(s): Nishimasu, H., Fushinobu, S., Shoun, H., Wakagi, T.

Revision History

  • 2008-04-30
    Type: Version format compliance
  • 2011-07-13
    Type: Version format compliance