1UZ1

Family 1 b-glucosidase from Thermotoga maritima in complex with isofagomine lactam

• PDB DOI: https://doi.org/10.2210/pdb1UZ1/pdb

• Classification: HYDROLASE
• Organism(s): Thermotoga maritima
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2004-03-03 Released: 2004-11-23 
• Deposition Author(s): Gloster, T.M., Macdonald, J., Stick, R.V., Davies, G.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.244 
• R-Value Work: 0.194 
• R-Value Observed: 0.197 

Starting Model: experimental

Literature

Common Inhibition of Both -Glucosidases and -Mannosidases by Isofagomine Lactam Reflects Different Conformational Itineraries for Pyranoside Hydrolysis

Vincent, F., Gloster, T.M., Macdonald, J., Morland, C., Stick, R.V., Dias, F.M.V., Prates, J.A.M., Fontes, C.M.G.A., Gilbert, H.J., Davies, G.J.

(2004) Chembiochem 5: 1596

• PubMed: 15515081 
• DOI: https://doi.org/10.1002/cbic.200400169
• Primary Citation of Related Structures:  
  1UZ1, 1UZ4

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Organizational Affiliation: 

Structural Biology Laboratory, Department of Chemistry, The University of York, Heslington, York, YO10 5YW, UK.

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 108.2 kDa 
• Atom Count: 7,752 
• Modelled Residue Count: 879 
• Deposited Residue Count: 936 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
BETA-GLUCOSIDASE A	A, B	468	Thermotoga maritima	Mutation(s): 0  EC: 3.2.1.21
UniProt
Find proteins for Q08638 (Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8)) Explore Q08638  Go to UniProtKB:  Q08638

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
IFL	C [auth A], D [auth B]	(3S,4R,5R)-3,4-DIHYDROXY-5-(HYDROXYMETHYL)PIPERIDIN-2-ONE C6 H11 N O4 ARBXEMIAJIJEQI-WDCZJNDASA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
IFL	PDBBind:  1UZ1	Ki: 130 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.244 
• R-Value Work: 0.194 
• R-Value Observed: 0.197 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 94.412	α = 90
b = 94.327	β = 90
c = 113.063	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-11-23 
Deposition Author(s): Gloster, T.M., Macdonald, J., Stick, R.V., Davies, G.J.

Revision History  

• Version 1.0: 2004-11-23
  Type: Initial release
  
• Version 1.1: 2011-05-07
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-12-13
  Changes: Data collection, Database references, Refinement description