1GNX | pdb_00001gnx

b-glucosidase from Streptomyces sp

• PDB DOI: https://doi.org/10.2210/pdb1GNX/pdb

• Classification: HYDROLASE
• Organism(s): Streptomyces sp.
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2001-10-10 Released: 2002-10-17 
• Deposition Author(s): Guasch, A., Perez-Pons, J.A., Vallmitjana, M., Querol, E., Coll, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.68 Å
• R-Value Free: 
  0.210 (Depositor) 
• R-Value Work: 
  0.190 (Depositor) 
• R-Value Observed: 
  0.190 (Depositor) 

Starting Model: experimental

Literature

Beta-Glucosidase from Streptomyces

Guasch, A., Vallmitjana, M., Perez, R., Querol, E., Perez-Pons, J.A., Coll, M.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PQS (software)

Macromolecule Content 

• Total Structure Weight: 105.39 kDa 
• Atom Count: 7,617 
• Modeled Residue Count: 896 
• Deposited Residue Count: 958 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
BETA-GLUCOSIDASE	A, B	479	Streptomyces sp.	Mutation(s): 0  EC: 3.2.1.21

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose	C	2		N/A
Glycosylation Resources
GlyTouCan:  G05551OP GlyCosmos:  G05551OP

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	D [auth A], E [auth B], F [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900003	C	sucrose	Oligosaccharide / Nutrient

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.68 Å
• R-Value Free:  0.210 (Depositor) 
• R-Value Work:  0.190 (Depositor) 
• R-Value Observed: 0.190 (Depositor) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 96.7	α = 90
b = 111.28	β = 90
c = 185.31	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2002-10-17 
Deposition Author(s): Guasch, A., Perez-Pons, J.A., Vallmitjana, M., Querol, E., Coll, M.

Revision History  

• Version 1.0: 2002-10-17
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2019-07-24
  Changes: Advisory, Data collection
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Non-polymer description, Structure summary
• Version 2.1: 2023-12-13
  Changes: Advisory, Data collection, Database references, Refinement description, Structure summary