3NJ4

Fluoro-neplanocin A in Human S-Adenosylhomocysteine Hydrolase

Structural Biology Knowledgebase: 3NJ4 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.207

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3NJ4

Classification: Hydrolase

Total Structure Weight: 195993.36

Macromolecule Entities
Molecule Chains Length Organism Details
Adenosylhomocysteinase A, B, C, D 435 Homo sapiens EC#: 3.3.1.1 IUBMB
Gene Name(s): AHCY Gene View SAHH

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

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

A, B, C, D (4S,5S)-4-(6-amino-9H-purin-9-yl)-3-fluoro- 5-hydroxy-2-(hydroxymethyl)cyclopent-2-en- 1-one
C11 H10 F N5 O3
DMGPQGOOCCLGOU-APPZFPTMSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
AFX N/A in BindingDB
IC50: 480 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.207
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 91.20 α = 90.00
b = 81.94 β = 107.01
c = 129.60 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-06-17
  • Released Date: 2011-05-04
  • Deposition author(s): Jeong, L.S., Lee, K.M., Hwang, K.Y., Choi, S., Heo, Y.S.

Revision History

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