6RKY

STRUCTURE OF ESTER-HYDROLASE EH1AB1 FROM THE METAGENOME OF LAKE ARREO COMPLEXED WITH A DERIVATIVE OF BIPYRIDINE PHOSPHONATE

• PDB DOI: https://doi.org/10.2210/pdb6RKY/pdb

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


• Deposited: 2019-04-30 Released: 2019-12-25 
• 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: 2.79 Å
• R-Value Free: 0.276 
• R-Value Work: 0.239 
• R-Value Observed: 0.241 

Starting Model: experimental

Literature

Genetically engineered proteins with two active sites for enhanced biocatalysis and synergistic chemo- and biocatalysis

Alonso, S., Santiago, G., Cea-Rama, I., Fernandez-Lopez, L., Coscolin, C., Modregger, J., Ressmann, A.K., Martinez-Martinez, M., Marrero, H., Bargiela, R., Pita, M., Gonzalez-Alfonso, J.L., Briand, M.L., Rojo, D., Barbas, C., Plou, F.J., Golyshin, P.N., Shahgaldian, P., Sanz-Aparicio, J., Guallar, V., Ferrer, M.

(2020) Nat Catal 3

• DOI: https://doi.org/10.1038/s41929-019-0394-4

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)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 144.74 kDa 
• Atom Count: 9,764 
• Modelled Residue Count: 1,260 
• Deposited Residue Count: 1,316 
• Unique protein chains: 1

Macromolecules

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

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZK8 (Subject of Investigation/LOI)	F [auth A], H [auth B], N [auth C], R [auth D]	hexyl-[2-(3-oxidanylpyridin-2-yl)pyridin-3-yl]oxy-phosphinic acid C16 H21 N2 O4 P QYCWYIQRYAMGGW-UHFFFAOYSA-N
PEG	K [auth C], L [auth C], M [auth C], Q [auth D]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
GOL	E [auth A], G [auth B], I [auth C], J [auth C], O [auth D], P [auth D]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.79 Å
• R-Value Free: 0.276 
• R-Value Work: 0.239 
• R-Value Observed: 0.241 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 90.766	α = 90
b = 201.92	β = 112.19
c = 90.637	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: 2019-12-25 
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: 2019-12-25
  Type: Initial release
  
• Version 2.0: 2020-10-14
  Changes: Advisory, Atomic model, Database references, Derived calculations, Polymer sequence, Source and taxonomy, Structure summary
• Version 2.1: 2020-12-16
  Changes: Database references
• Version 3.0: 2021-06-30
  Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Non-polymer description, Polymer sequence, Source and taxonomy, Structure summary
• Version 3.1: 2022-10-26
  Changes: Database references
• Version 4.0: 2023-07-05
  Changes: Atomic model, Author supporting evidence, Data collection, Derived calculations, Non-polymer description, Polymer sequence, Structure summary
• Version 4.1: 2024-02-07
  Changes: Data collection, Refinement description
• Version 4.2: 2024-10-23
  Changes: Structure summary