3CUF | pdb_00003cuf

Cellulomonas fimi Xylanase/Cellulase Cex (Cf Xyn10A) in complex with cellobiose-like isofagomine

• PDB DOI: https://doi.org/10.2210/pdb3CUF/pdb

• Classification: HYDROLASE
• Organism(s): Cellulomonas fimi
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-04-16 Released: 2009-04-21 
• Deposition Author(s): Kuntz, D.A., Saul, M., Rose, D.R.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.67 Å
• R-Value Free: 
  0.188 (Depositor), 0.154 (DCC) 
• R-Value Work: 
  0.156 (Depositor), 0.158 (DCC) 
• R-Value Observed: 
  0.158 (Depositor) 

Starting Model: experimental

Literature

Probing the binding sites of Family 10 and 11 Xylanases with extended Oligosaccharides

Poon, D.K.Y., D'Angelo, I.D., Kuntz, D.A., Kantner, T., Ludkiwzek, M.L., Tarling, C., Rose, D.R., Saul, M., McIntosh, L.P., Withers, S.G.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 34.58 kDa 
• Atom Count: 2,821 
• Modeled Residue Count: 314 
• Deposited Residue Count: 315 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Exo-beta-1,4-glucanase	A	315	Cellulomonas fimi	Mutation(s): 0  Gene Names: cex EC: 3.2.1.91 (PDB Primary Data), 3.2.1.8 (UniProt)
UniProt
Find proteins for P07986 (Cellulomonas fimi) Explore P07986  Go to UniProtKB:  P07986

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
9MR	B [auth A]	(3R,4R,5R)-3-hydroxy-5-(hydroxymethyl)piperidin-4-yl beta-D-glucopyranoside C12 H23 N O8 LEOSSOWHBSKZSO-WUYFHPBOSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.67 Å
• R-Value Free:  0.188 (Depositor), 0.154 (DCC) 
• R-Value Work:  0.156 (Depositor), 0.158 (DCC) 
• R-Value Observed: 0.158 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 85.668	α = 90
b = 85.668	β = 90
c = 79.179	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
SCALEPACK	data scaling
CNS	refinement
DENZO	data reduction
PDB_EXTRACT	data extraction
MAR345dtb	data collection
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-04-21 
Deposition Author(s): Kuntz, D.A., Saul, M., Rose, D.R.

Revision History  

• Version 1.0: 2009-04-21
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-10-25
  Changes: Advisory, Refinement description
• Version 1.3: 2019-07-24
  Changes: Data collection, Refinement description
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Derived calculations, Structure summary
• Version 2.1: 2023-08-30
  Changes: Advisory, Data collection, Database references, Refinement description, Structure summary
• Version 2.2: 2024-10-30
  Changes: Structure summary