5HQN

Catalytic domain of murine Acid Sphingomyelinase (ASMase, ASM, SMPD1)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.258
  • R-Value Work: 0.213

Literature

Macromolecules
Sequence Display for 5HQN

Classification: HYDROLASE

Total Structure Weight: 111100.98

Macromolecule Entities
Molecule Chains Length Organism Details
Sphingomyelin phosphodiesterase A, B 473 Mus musculus EC#: 3.1.4.12 IUBMB
Fragment: catalytic domain (UNP residues 165-627)
Gene Name(s): Smpd1 Asm
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FUC
Query on FUC

A, B ALPHA-L-FUCOSE
C6 H12 O5
SHZGCJCMOBCMKK-SXUWKVJYSA-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)
ZN
Query on ZN

A, B ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.258
  • R-Value Work: 0.213
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 124.84 α = 90.00
b = 127.30 β = 121.67
c = 102.52 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-01-21
  • Released Date: 2016-07-06
  • Deposition author(s): Gorelik, A., Illes, K., Heinz, L.X., Superti-Furga, G., Nagar, B.

Revision History

  • 2016-08-03
    Type: Database references