1DGK

MUTANT MONOMER OF RECOMBINANT HUMAN HEXOKINASE TYPE I WITH GLUCOSE AND ADP IN THE ACTIVE SITE

Structural Biology Knowledgebase: 1DGK SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.308
  • R-Value Work: 0.258

Literature

Macromolecules
Sequence Display for 1DGK

Classification: TRANSFERASE

Total Structure Weight: 103867.35

Macromolecule Entities
Molecule Chains Length Organism Details
HEXOKINASE TYPE I N 917 Homo sapiens EC#: 2.7.1.1 IUBMB
Mutation: A240E, A243R, G284Y, T536A, N730D, M776L
Details: SECOND MOLECULE OF ADP IS BOUND NEAR THE N-TERMINUS OF THE POLYPEPTIDE CHAIN. THE REGULATORY SITE OF THE N-TERMINAL DOMAIN IS OCCUPIED WITH GLUCOSE AND PHOSPHATE. MUTATIONS IN DIMER INTERFACE AND THE ACTIVE SITE
Gene Name(s): HK1 Gene View
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

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

N ALPHA-D-GLUCOSE
C6 H12 O6
WQZGKKKJIJFFOK-DVKNGEFBSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

N PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.308
  • R-Value Work: 0.258
  • Space Group: P 21 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 145.78 α = 90.00
b = 146.83 β = 90.00
c = 58.59 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-11-24
  • Released Date: 2000-03-08
  • Deposition author(s): Aleshin, A.E., Liu, X., Kirby, C., Bourenkov, G.P., Bartunik, H.D., Fromm, H.J., Honzatko, R.B.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4