7SPN | pdb_00007spn

Crystal structure of IS11, a thermophilic esterase

• PDB DOI: https://doi.org/10.2210/pdb7SPN/pdb

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


• Deposited: 2021-11-02 Released: 2022-08-24 
• Deposition Author(s): Stogios, P.J., Evdokimova, E., Khusnutdinova, A., Yakunin, A.F., Savchenko, A.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.92 Å
• R-Value Free: 
  0.258 (Depositor), 0.260 (DCC) 
• R-Value Work: 
  0.197 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.203 (Depositor) 

Starting Model: in silico

Literature

Crystal structure of IS11, a thermophilic esterase

Yakunin, A.F.

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 PISA (software)

Macromolecule Content 

• Total Structure Weight: 98.95 kDa 
• Atom Count: 7,013 
• Modeled Residue Count: 911 
• Deposited Residue Count: 912 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
IS11	A, B	456	Dehalococcoidia bacterium	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.92 Å
• R-Value Free:  0.258 (Depositor), 0.260 (DCC) 
• R-Value Work:  0.197 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.203 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.216	α = 90
b = 103.359	β = 103.481
c = 94.857	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHENIX	phasing
PHENIX	model building
Coot	model building

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-08-24 
Deposition Author(s): Stogios, P.J., Evdokimova, E., Khusnutdinova, A., Yakunin, A.F., Savchenko, A.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2022-08-24
  Type: Initial release
  
• Version 1.1: 2024-04-03
  Changes: Data collection, Refinement description