3AI0

Crystal structure of beta-glucosidase from termite Neotermes koshunensis in complex with para-nitrophenyl-beta-D-glucopyranoside

• PDB DOI: https://doi.org/10.2210/pdb3AI0/pdb

• Classification: HYDROLASE
• Organism(s): Neotermes koshunensis
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2010-05-06 Released: 2010-08-18 
• Deposition Author(s): Jeng, W.-Y., Liu, C.-I., Wang, A.H.-J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free: 0.153 
• R-Value Work: 0.122 
• R-Value Observed: 0.123 

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 56 kDa 
• Atom Count: 4,618 
• Modelled Residue Count: 472 
• Deposited Residue Count: 487 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
beta-glucosidase	A	487	Neotermes koshunensis	Mutation(s): 1  Gene Names: NkBG EC: 3.2.1.21
UniProt
Find proteins for Q8T0W7 (Neotermes koshunensis) Explore Q8T0W7  Go to UniProtKB:  Q8T0W7

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PNW	B [auth A]	4-nitrophenyl beta-D-glucopyranoside C12 H15 N O8 IFBHRQDFSNCLOZ-RMPHRYRLSA-N
GOL	C [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free: 0.153 
• R-Value Work: 0.122 
• R-Value Observed: 0.123 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 93.089	α = 90
b = 68.755	β = 95.68
c = 75.746	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
CNS	refinement
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-08-18 
Deposition Author(s): Jeng, W.-Y., Liu, C.-I., Wang, A.H.-J.

Revision History  

• Version 1.0: 2010-08-18
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Database references, Derived calculations
• Version 1.3: 2023-11-01
  Changes: Data collection, Database references, Refinement description, Structure summary