1K0U

Inhibition of S-adenosylhomocysteine Hydrolase by "acyclic sugar" Adenosine Analogue D-eritadenine

Structural Biology Knowledgebase: 1K0U SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.265
  • R-Value Work: 0.183

Literature

Macromolecules
Sequence Display for 1K0U

Classification: HYDROLASE

Total Structure Weight: 387062.53

Macromolecule Entities
Molecule Chains Length Organism Details
S-ADENOSYL-L-HOMOCYSTEINE HYDROLASE A, B, C..., D, E, F, G, HA, B, C, D, E, F, G, H 431 Rattus norvegicus EC#: 3.3.1.1 IUBMB
Gene Name(s): Ahcy
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, C, D, E, F, G, H NICOTINAMIDE-ADENINE-DINUCLEOTIDE
C21 H27 N7 O14 P2
BAWFJGJZGIEFAR-NNYOXOHSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DEA
Query on DEA

A, B, C, D, E, F, G, H D-ERITADENINE
C9 H11 N5 O4
LIEMBEWXEZJEEZ-INEUFUBQSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
DEA IC50: 30 nM (100) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.265
  • R-Value Work: 0.183
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 89.87 α = 90.00
b = 177.37 β = 107.60
c = 112.16 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-09-20
  • Released Date: 2001-10-17
  • Deposition author(s): Takusagawa, F., Huang, Y., Komoto, J., Takata, Y., Gomi, T., Ogawa, H., Fujioka, M., Powell, D.
  • Previous versions: 1D4G

Revision History

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