7A6G | pdb_00007a6g

Structural characterization of L-proline amide hydrolase from Pseudomonas syringae

• PDB DOI: https://doi.org/10.2210/pdb7A6G/pdb

• Classification: HYDROLASE
• Organism(s): Pseudomonas syringae pv. tomato
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2020-08-25 Released: 2021-10-06 
• Deposition Author(s): Martinez-Rodriguez, S., Gavira, J.A.
• Funding Organization(s): Spanish Ministry of Science, Innovation, and Universities

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 
  0.223 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.156 (Depositor), 0.160 (DCC) 
• R-Value Observed: 
  0.160 (Depositor) 

Starting Model: experimental

Literature

A New L-Proline Amide Hydrolase with Potential Application within the Amidase Process

Martinez-Rodriguez, S., Contreras-Montoya, R., Torres, J.M., de Cienfuegos, L.A., Gavira, J.A.

(2022) Crystals (Basel) 12

• DOI: https://doi.org/10.3390/cryst12010018

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Macromolecule Content 

• Total Structure Weight: 36.85 kDa 
• Atom Count: 2,824 
• Modeled Residue Count: 303 
• Deposited Residue Count: 328 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative Proline iminopeptidase	A	328	Pseudomonas syringae pv. tomato	Mutation(s): 0  Gene Names: ALO36_01328

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	B [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free:  0.223 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.156 (Depositor), 0.160 (DCC) 
• R-Value Observed: 0.160 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.428	α = 90
b = 65.033	β = 90
c = 85.016	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2021-10-06 
Deposition Author(s): Martinez-Rodriguez, S., Gavira, J.A.

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Funding Organization	Location	Grant Number
Spanish Ministry of Science, Innovation, and Universities	Spain	BIO2016-74875-P

Revision History  

• Version 1.0: 2021-10-06
  Type: Initial release
  
• Version 1.1: 2022-04-20
  Changes: Database references
• Version 1.2: 2024-01-31
  Changes: Data collection, Refinement description