3FD5

Crystal structure of human selenophosphate synthetase 1 complex with AMPCP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.195
  • R-Value Work: 0.138

Literature

Macromolecules
Sequence Display for 3FD5

Classification: TRANSFERASE

Total Structure Weight: 87459.60

Macromolecule Entities
Molecule Chains Length Organism Details
Selenide, water dikinase 1 A, B 394 Homo sapiens EC#: 2.7.9.3 IUBMB
Gene Name(s): SEPHS1 Gene View SELD SPS SPS1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
AP2
Query on AP2

A, B PHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER
C11 H17 N5 O9 P2
OLCWZBFDIYXLAA-IOSLPCCCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A, B PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
K
Query on K

A, B POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.195
  • R-Value Work: 0.138
  • Space Group: P 43

Unit Cell:

Length (Å) Angle (°)
a = 66.73 α = 90.00
b = 66.73 β = 90.00
c = 181.17 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-11-25
  • Released Date: 2009-09-22
  • Deposition author(s): Wang, K.T.

Revision History

  • 2011-07-13
    Type: Version format compliance