6RB0 | pdb_00006rb0

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

• PDB DOI: https://doi.org/10.2210/pdb6RB0/pdb

• Classification: HYDROLASE
• Organism(s): metagenome
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2019-04-08 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: 2.35 Å
• R-Value Free: 
  0.212 (Depositor), 0.210 (DCC) 
• R-Value Work: 
  0.177 (Depositor), 0.180 (DCC) 
• R-Value Observed: 
  0.178 (Depositor) 

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)

Macromolecule Content

• Total Structure Weight: 72.39 kDa 
• Atom Count: 5,002 
• Modelled 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 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MHH	E [auth A], F [auth A], J [auth B], K [auth B]	methyl hydrogen (R)-hexylphosphonate C7 H17 O3 P FOQQOPHBXMFLMD-UHFFFAOYSA-N
GOL	C [auth A], D [auth A], G [auth B], H [auth B], I [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.35 Å
• R-Value Free:  0.212 (Depositor), 0.210 (DCC) 
• R-Value Work:  0.177 (Depositor), 0.180 (DCC) 
• R-Value Observed: 0.178 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 83.077	α = 90
b = 86.09	β = 90
c = 97.611	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: 2020-10-21
  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 2.2: 2022-10-26
  Changes: Database references
• Version 2.3: 2024-01-31
  Changes: Data collection, Refinement description
• Version 2.4: 2024-11-20
  Changes: Structure summary