2V3F

acid-beta-glucosidase produced in carrot

Structural Biology Knowledgebase: 2V3F SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.196
  • R-Value Work: 0.149

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2V3F

Classification: HYDROLASE

Total Structure Weight: 116054.42

Macromolecule Entities
Molecule Chains Length Organism Details
GLUCOSYLCERAMIDASE A, B 505 Homo sapiens EC#: 3.2.1.45 IUBMB
Mutation: R495H
Gene Name(s): GBA Gene View GC Gene View GLUC
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 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
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BTB
Query on BTB

A, B 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL- PROPANE-1,3-DIOL
BIS-TRIS BUFFER (Synonym)
C8 H19 N O5
OWMVSZAMULFTJU-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MAN
Query on MAN

A ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FUC
Query on FUC

A, B ALPHA-L-FUCOSE
C6 H12 O5
SHZGCJCMOBCMKK-SXUWKVJYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.196
  • R-Value Work: 0.149
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 68.09 α = 90.00
b = 97.10 β = 104.43
c = 82.93 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-06-17
  • Released Date: 2008-04-08
  • Deposition author(s): Shaaltiel, Y., Bartfeld, D., Hashmueli, S., Baum, G., Brill-Almon, E., Galili, G., Dym, O., Boldin-Adamsky, S.A., Silman, I., Sussman, J.L., Futerman, A.H., Aviezer, D., Israel Structural Proteomics Center (ISPC)

Revision History

  • 2015-05-06
    Type: Entry authorship | Details: AUTHOR
  • 2015-05-06
    Type: Other | Details: REMARK 525
  • 2015-05-06
    Type: Version format compliance | Details: REMARK 4
  • 2015-05-06
    Type: Non-polymer description | Details: FORMUL
  • 2015-05-06
    Type: Biological assembly | Details: REMARK 350
  • 2015-05-06
    Type: Binding sites and description | Details: SITE,REMARK 800