5A8N

Crystal structure of the native form of beta-glucanase SdGluc5_26A from Saccharophagus degradans


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.180
  • R-Value Work: 0.151

Literature

Macromolecules
Sequence Display for 5A8N

Classification: HYDROLASE

Total Structure Weight: 43222.99

Macromolecule Entities
Molecule Chains Length Organism Details
PUTATIVE RETAINING B-GLYCOSIDASE A 365 Saccharophagus degradans EC#: 3.2.1.73 IUBMB
Fragment: CATALYTIC DOMAIN
Mutation: Q82R, K176Q
Gene Name(s): cel5F Sde_1572
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
PGE
Query on PGE

A TRIETHYLENE GLYCOL
C6 H14 O4
ZIBGPFATKBEMQZ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

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

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A 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: 2.05 Å
  • R-Value Free: 0.180
  • R-Value Work: 0.151
  • Space Group: P 41 3 2

Unit Cell:

Length (Å) Angle (°)
a = 143.34 α = 90.00
b = 143.34 β = 90.00
c = 143.34 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2015-07-16
  • Released Date: 2016-01-20
  • Deposition author(s): Sulzenbacher, G., Lafond, M., Freyd, T., Henrissat, B., Coutinho, R.M., Berrin, J.G., Garron, M.L.

Revision History

  • Version 1_0: 2016-01-20

    Type: Initial release

  • Version 1_1: 2016-04-06

    Type: Database references

  • Version 1_2: 2017-09-13

    Type: Data collection