5JD4

Crystal structure of LAE6 Ser161Ala mutant, an alpha/beta hydrolase enzyme from the metagenome of Lake Arreo, Spain


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.211 
  • R-Value Work: 0.169 
  • R-Value Observed: 0.169 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 2.1 of the entry. See complete history


Literature

Crystal structure of LAE6 Ser161Ala mutant, an alpha/beta hydrolase enzyme from the metagenome of Lake Arreo, Spain

Martinez-Martinez, M.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
LAE6
A, B, C, D, E
A, B, C, D, E, F, G, H
336uncultured bacteriumMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 5 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PE3
Query on PE3

Download Ideal Coordinates CCD File 
KA [auth D],
KB [auth H],
N [auth A]
3,6,9,12,15,18,21,24,27,30,33,36,39-TRIDECAOXAHENTETRACONTANE-1,41-DIOL
C28 H58 O15
ILLKMACMBHTSHP-UHFFFAOYSA-N
BEN
Query on BEN

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CA [auth C]
FB [auth G]
LA [auth D]
LB [auth H]
O [auth A]
CA [auth C],
FB [auth G],
LA [auth D],
LB [auth H],
O [auth A],
RA [auth E],
W [auth B],
WA [auth F]
BENZAMIDINE
C7 H8 N2
PXXJHWLDUBFPOL-UHFFFAOYSA-N
SO4
Query on SO4

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DA [auth D]
GB [auth H]
HB [auth H]
I [auth A]
J [auth A]
DA [auth D],
GB [auth H],
HB [auth H],
I [auth A],
J [auth A],
P [auth B],
Q [auth B],
X [auth C],
XA [auth G],
Y [auth C]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
GOL
Query on GOL

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AA [auth C]
BB [auth G]
CB [auth G]
DB [auth G]
EA [auth D]
AA [auth C],
BB [auth G],
CB [auth G],
DB [auth G],
EA [auth D],
EB [auth G],
GA [auth D],
HA [auth D],
IA [auth D],
IB [auth H],
JB [auth H],
K [auth A],
M [auth A],
NA [auth E],
OA [auth E],
PA [auth E],
QA [auth E],
R [auth B],
SA [auth F],
T [auth B],
TA [auth F],
U [auth B],
UA [auth F],
V [auth B],
YA [auth G],
Z [auth C],
ZA [auth G]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
CL
Query on CL

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AB [auth G]
BA [auth C]
FA [auth D]
JA [auth D]
L [auth A]
AB [auth G],
BA [auth C],
FA [auth D],
JA [auth D],
L [auth A],
MA [auth E],
S [auth B],
VA [auth F]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.211 
  • R-Value Work: 0.169 
  • R-Value Observed: 0.169 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 90.275α = 68.02
b = 90.098β = 79.6
c = 110.76γ = 67.57
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-3000data reduction
HKL-3000data scaling
BALBESphasing
PHENIXmodel building
Cootmodel building

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-05-04
    Type: Initial release
  • Version 1.1: 2017-04-26
    Changes: Atomic model, Structure summary
  • Version 2.0: 2021-08-04
    Changes: Atomic model, Data collection, Derived calculations, Non-polymer description, Structure summary
  • Version 2.1: 2023-09-27
    Changes: Data collection, Database references, Refinement description