2V3G | pdb_00002v3g

Structure of a family 26 lichenase in complex with noeuromycin

• PDB DOI: https://doi.org/10.2210/pdb2V3G/pdb

• Classification: HYDROLASE
• Organism(s): Acetivibrio thermocellus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2007-06-18 Released: 2007-09-18 
• Deposition Author(s): Meloncelli, P.J., Gloster, T.M., Money, V.A., Tarling, C.A., Davies, G.J., Withers, S.G., Stick, R.V.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.20 Å
• R-Value Free: 
  0.144 (Depositor), 0.153 (DCC) 
• R-Value Work: 
  0.116 (Depositor), 0.126 (DCC) 
• R-Value Observed: 
  0.117 (Depositor) 

Starting Model: experimental

Literature

D-Glucosylated Derivatives of Isofagomine and Noeuromycin and Their Potential as Inhibitors of Beta-Glycoside Hydrolases

Meloncelli, P.J., Gloster, T.M., Money, V.A., Tarling, C.A., Davies, G.J., Withers, S.G., Stick, R.V.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 32.52 kDa 
• Atom Count: 2,826 
• Modeled Residue Count: 273 
• Deposited Residue Count: 283 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ENDOGLUCANASE H	A	283	Acetivibrio thermocellus	Mutation(s): 0  EC: 3.2.1.4
UniProt
Find proteins for P16218 (Acetivibrio thermocellus (strain ATCC 27405 / DSM 1237 / JCM 9322 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372)) Explore P16218  Go to UniProtKB:  P16218

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BGC	B [auth A]	beta-D-glucopyranose C6 H12 O6 WQZGKKKJIJFFOK-VFUOTHLCSA-N
NOY	C [auth A]	(2R,3S,4R,5R)-5-(HYDROXYMETHYL)PIPERIDINE-2,3,4-TRIOL C6 H13 N O4 BHOYFRIRWXBNHP-ARQDHWQXSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.20 Å
• R-Value Free:  0.144 (Depositor), 0.153 (DCC) 
• R-Value Work:  0.116 (Depositor), 0.126 (DCC) 
• R-Value Observed: 0.117 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.765	α = 90
b = 63.516	β = 90
c = 78.235	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-09-18 
Deposition Author(s): Meloncelli, P.J., Gloster, T.M., Money, V.A., Tarling, C.A., Davies, G.J., Withers, S.G., Stick, R.V.

Revision History  

• Version 1.0: 2007-09-18
  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: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Data collection, Derived calculations, Other, Structure summary
• Version 1.4: 2023-12-13
  Changes: Data collection, Database references, Refinement description, Structure summary