2RB3

Crystal Structure of Human Saposin D

Structural Biology Knowledgebase: 2RB3 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.274
  • R-Value Work: 0.211

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2RB3

Classification: LIPID BINDING PROTEIN

Total Structure Weight: 39089.27

Macromolecule Entities
Molecule Chains Length Organism Details
Proactivator polypeptide A, B, C, D 85 Homo sapiens Gene Name(s): PSAP Gene View GLBA SAP1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SO4
Query on SO4

A, C SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

B, D GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.274
  • R-Value Work: 0.211
  • Space Group: P 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 40.15 α = 89.96
b = 41.09 β = 80.84
c = 65.93 γ = 71.49

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-09-18
  • Released Date: 2008-04-29
  • Deposition author(s): Maier, T., Rossman, M., Saenger, W.

Revision History

  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4