2E8I

Structure of 6-aminohexanoate-dimer hydrolase, D1 mutant

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.45 Å
  • R-Value Free: 0.199 
  • R-Value Work: 0.187 

wwPDB Validation 3D Report Full Report


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

Literature

Molecular design of a nylon-6 byproduct-degrading enzyme from a carboxylesterase with a b-lactamase fold.

Kawashima, Y., Ohki, T., Shibata, N., Higuchi, Y., Wakitani, Y., Matsuura, Y., Nakata, Y., Takeo, M., Kato, D., Negoro, S.

(2009) Febs J. --: --


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
6-aminohexanoate-dimer hydrolase
A
392Flavobacterium sp. (strain K172)Mutation(s): 1 
Gene Names: nylB', nylB
EC: 3.5.1.46 3.5.1.46
Find proteins for P07062 (Flavobacterium sp. (strain K172))
Go to UniProtKB:  P07062
Find proteins for P07061 (Flavobacterium sp. (strain K172))
Go to UniProtKB:  P07061
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4
Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
GOL
Query on GOL
Download SDF File 
Download CCD File 
A
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
MES
Query on MES
Download SDF File 
Download CCD File 
A
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
C6 H13 N O4 S
SXGZJKUKBWWHRA-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.45 Å
  • R-Value Free: 0.199 
  • R-Value Work: 0.187 
  • Space Group: P 32 2 1
Unit Cell:
Length (Å)Angle (°)
a = 96.690α = 90.00
b = 96.690β = 90.00
c = 112.930γ = 120.00
Software Package:
Software NamePurpose
HKL-2000data reduction
HKL-2000data collection
CNSphasing
CNSrefinement
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots


View more in-depth experimental data

Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2008-01-15
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Derived calculations, Source and taxonomy, Version format compliance
  • Version 1.2: 2017-08-23
    Type: Source and taxonomy