6RGS

Crystal Structure of Phenylalanine Ammonia Lyase (PAL) from Petroselinum crispum bound to cinnamate

• PDB DOI: https://doi.org/10.2210/pdb6RGS/pdb

• Classification: LYASE
• Organism(s): Petroselinum crispum
• Expression System: Escherichia coli BL21
• Mutation(s): Yes 


• Deposited: 2019-04-17 Released: 2019-09-04 
• Deposition Author(s): Brem, J., Lang, P., Bencze, C.-L., Schofield, C.
• Funding Organization(s): Medical Research Council (United Kingdom)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.42 Å
• R-Value Free: 0.238 
• R-Value Work: 0.210 
• R-Value Observed: 0.212 

Literature

Mapping the Hydrophobic Substrate Binding Site of Phenylalanine Ammonia Lyase from Petroselinum crispum

Nagy, E.Z.A., Tork, S.D., Lang, P.A., Filip, A., Irimie, F.D., Poppe, L., Tosa, M.I., Schofield, C.J., Brem, J., Paizs, C., Bencze, L.C.

(2019) ACS Catal 

• DOI: https://doi.org/10.1021/acscatal.9b02108

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 162.15 kDa 
• Atom Count: 9,415 
• Modelled Residue Count: 1,254 
• Deposited Residue Count: 1,480 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phenylalanine ammonia-lyase 1	A, B	740	Petroselinum crispum	Mutation(s): 3  Gene Names: PAL1 EC: 4.3.1.24
UniProt
Find proteins for P24481 (Petroselinum crispum) Explore P24481  Go to UniProtKB:  P24481

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
K3Z	C [auth B]	(E)-3-(4-methoxyphenyl)acrylic acid C10 H10 O3 AFDXODALSZRGIH-QPJJXVBHSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MDO	A, B	L-PEPTIDE LINKING	C8 H11 N3 O3		ALA, SER, GLY

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.42 Å
• R-Value Free: 0.238 
• R-Value Work: 0.210 
• R-Value Observed: 0.212 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 119.91	α = 90
b = 159.82	β = 90
c = 142.72	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
SCALEPACK	data scaling
XDS	data reduction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-09-04 
Deposition Author(s): Brem, J., Lang, P., Bencze, C.-L., Schofield, C.

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Funding Organization	Location	Grant Number
Medical Research Council (United Kingdom)	United Kingdom	--

Revision History  

• Version 1.0: 2019-09-04
  Type: Initial release
  
• Version 2.0: 2023-11-15
  Changes: Atomic model, Data collection, Database references, Derived calculations
• Version 2.1: 2024-01-24
  Changes: Refinement description