6I8D | pdb_00006i8d

STRUCTURE OF ESTER-HYDROLASE EH1AB1 FROM THE METAGENOME OF LAKE ARREO COMPLEXED WITH A DERIVATIVE OF BUTYL 4-NITROPHENYL HEXYLPHOSPHONATE

• PDB DOI: https://doi.org/10.2210/pdb6I8D/pdb

• Classification: HYDROLASE
• Organism(s): metagenome
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2018-11-20 Released: 2019-11-27 
• Deposition Author(s): Cea-Rama, I., Sanz-Aparicio, J.
• Funding Organization(s): Spanish Ministry of Economy and Competitiveness

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free: 
  0.276 (Depositor), 0.283 (DCC) 
• R-Value Work: 
  0.227 (Depositor), 0.234 (DCC) 
• R-Value Observed: 
  0.230 (Depositor) 

Starting Model: experimental

Literature

STRUCTURE OF ESTER-HYDROLASE EH1AB1 FROM THE METAGENOME OF LAKE ARREO COMPLEXED WITH A DERIVATIVE OF BUTYL 4-NITROPHENYL HEXYLPHOSPHONATE

Cea-Rama, I., Sanz-Aparicio, J.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 72.51 kDa 
• Atom Count: 4,890 
• Modeled Residue Count: 630 
• Deposited Residue Count: 658 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
EH1AB1	A, B	329	metagenome	Mutation(s): 0

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
H7N	C [auth A], D [auth A], H [auth B], I [auth B]	butoxy(hexyl)phosphinic acid C10 H23 O3 P ALZDUSNEVXETKK-UHFFFAOYSA-N
PEG	E [auth A], F [auth A], J [auth B]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
GOL	G [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free:  0.276 (Depositor), 0.283 (DCC) 
• R-Value Work:  0.227 (Depositor), 0.234 (DCC) 
• R-Value Observed: 0.230 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 85.25	α = 90
b = 88.161	β = 90
c = 98.498	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
MOLREP	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2019-11-27 
Deposition Author(s): Cea-Rama, I., Sanz-Aparicio, J.

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Funding Organization	Location	Grant Number
Spanish Ministry of Economy and Competitiveness	Spain	Project BIO2016-76601-C3-3-R

Revision History  

• Version 1.0: 2019-11-27
  Type: Initial release
  
• Version 2.0: 2020-09-30
  Changes: Advisory, Atomic model, Database references, Derived calculations, Polymer sequence, Source and taxonomy, Structure summary
• Version 2.1: 2024-01-24
  Changes: Data collection, Database references, Refinement description
• Version 2.2: 2024-10-16
  Changes: Structure summary