5C7Y

ZHD-Intermediate complex after ZHD crystal soaking in ZEN for 9min

  • Classification: HYDROLASE
  • Organism(s): Clonostachys rosea
  • Expression System: Escherichia coli
  • Mutation(s): No 

  • Deposited: 2015-06-25 Released: 2016-06-29 
  • Deposition Author(s): Hu, X.-J., Qi, Q., Yang, W.-J.
  • Funding Organization(s): Chinese High-tech Research and Development program, the 973 Program of the Ministry of Science and Technology of China

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.181 
  • R-Value Work: 0.153 
  • R-Value Observed: 0.154 

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

A Case Study of Lactonase ZHD

Ming, D.-M., Qi, Q., Yang, W.-J., Sun, K.-L., Xu, T.-Y., Huang, Q., Hu, X.-J., Lv, H.

To be published.

Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Zearalenone hydrolase
A, B
284Clonostachys roseaMutation(s): 0 
Gene Names: zhd101
EC: 3.1.1
UniProt
Find proteins for Q8NKB0 (Bionectria ochroleuca)
Explore Q8NKB0 
Go to UniProtKB:  Q8NKB0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8NKB0
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ZFR
Query on ZFR
Download Ideal Coordinates CCD File 
C [auth A],
H [auth B]		(1E,10S)-1-(3,5-dihydroxyphenyl)-10-hydroxyundec-1-en-6-one
C17 H24 O4
TVXRLKRGDWQGQV-MXPWBENCSA-N
GOL
Query on GOL
Download Ideal Coordinates CCD File 
D [auth A],
I [auth B],
J [auth B]		GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
FMT
Query on FMT
Download Ideal Coordinates CCD File 
E [auth A],
F [auth A],
K [auth B]		FORMIC ACID
C H2 O2
BDAGIHXWWSANSR-UHFFFAOYSA-N
K
Query on K
Download Ideal Coordinates CCD File 
G [auth A],
L [auth B]		POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.181 
  • R-Value Work: 0.153 
  • R-Value Observed: 0.154 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 74.69α = 90
b = 89.67β = 90
c = 113.2γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
MOLREPphasing

Structure Validation

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Ligand Structure Quality Assessment 


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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Chinese High-tech Research and Development programChina2013AA102803B
Chinese High-tech Research and Development programChina2014AA021301
the 973 Program of the Ministry of Science and Technology of ChinaChinaNo. 2009CB918602

Revision History  (Full details and data files)

  • Version 1.0: 2016-06-29
    Type: Initial release
  • Version 1.1: 2023-11-08
    Changes: Data collection, Database references, Derived calculations, Refinement description