5Z7J

Crystal structure of a lactonase double mutant in complex with ligand l


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.98 Å
  • R-Value Free: 0.209 
  • R-Value Work: 0.166 
  • R-Value Observed: 0.166 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Crystal Structure of a Mycoestrogen-Detoxifying Lactonase from Rhinocladiella mackenziei: Molecular Insight into ZHD Substrate Selectivity

Zheng, Y.Y.Liu, W.T.Chen, C.C.Hu, X.Y.Liu, W.D.Ko, T.P.Tang, X.K.Wei, H.L.Huang, J.W.Guo, R.T.

(2018) ACS Catal 8: 4294-4298


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Lactonase for protein
A, B, C, D, E
A, B, C, D, E, F, G, H
264Rhinocladiella mackenziei CBS 650.93Mutation(s): 2 
Gene Names: Z518_04590
UniProt
Find proteins for A0A0D2ILK1 (Rhinocladiella mackenziei CBS 650.93)
Explore A0A0D2ILK1 
Go to UniProtKB:  A0A0D2ILK1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0D2ILK1
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
36J
Query on 36J

Download Ideal Coordinates CCD File 
I [auth A]
J [auth B]
M [auth C]
N [auth D]
O [auth E]
I [auth A],
J [auth B],
M [auth C],
N [auth D],
O [auth E],
P [auth F],
Q [auth G],
R [auth H]
(3S,7R,11E)-7,14,16-trihydroxy-3-methyl-3,4,5,6,7,8,9,10-octahydro-1H-2-benzoxacyclotetradecin-1-one
C18 H24 O5
FPQFYIAXQDXNOR-QDKLYSGJSA-N
PEG
Query on PEG

Download Ideal Coordinates CCD File 
K [auth B],
L [auth B]
DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.98 Å
  • R-Value Free: 0.209 
  • R-Value Work: 0.166 
  • R-Value Observed: 0.166 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 75.335α = 90.73
b = 94.759β = 92.36
c = 100.449γ = 91.59
Software Package:
Software NamePurpose
HKL-2000data scaling
PHENIXrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction
PHASERphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of ChinaChina31400678, 31470240, 31500642, 31570130, 31600058, and 31600638

Revision History  (Full details and data files)

  • Version 1.0: 2018-05-02
    Type: Initial release
  • Version 1.1: 2023-11-22
    Changes: Data collection, Database references, Refinement description