5GL8

The crystal structure of Nattokinase fragments

  • Classification: HYDROLASE
  • Organism(s): Bacillus subtilis subsp. natto
  • Mutation(s): No 

  • Deposited: 2016-07-10 Released: 2017-10-25 
  • Deposition Author(s): Liu, W.
  • Funding Organization(s): National Natural Science Foundation of China

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.291 
  • R-Value Work: 0.231 
  • R-Value Observed: 0.234 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history. 


Literature

unpublished

Ren, Y., Pan, X., Lyu, Q., Liu, W.

To be published.

Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Subtilisin NAT
A, B
275Bacillus subtilis subsp. nattoMutation(s): 0 
EC: 3.4.21.62
UniProt
Find proteins for P35835 (Bacillus subtilis subsp. natto)
Explore P35835 
Go to UniProtKB:  P35835
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP35835
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.291 
  • R-Value Work: 0.231 
  • R-Value Observed: 0.234 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 52.284α = 90
b = 73.959β = 97.47
c = 67.811γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
SCALEPACKdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data

  • Released Date: 2017-10-25 
    • Deposition Author(s): Liu, W.
Funding OrganizationLocationGrant Number
National Natural Science Foundation of ChinaChina8130268

Revision History  (Full details and data files)

  • Version 1.0: 2017-10-25
    Type: Initial release
  • Version 1.1: 2018-07-18
    Changes: Data collection, Database references
  • Version 1.2: 2023-11-08
    Changes: Data collection, Database references, Refinement description