7NL3

Crystal structure of Paradendryphiella salina PL7A alginate lyase mutant Y223F

• PDB DOI: https://doi.org/10.2210/pdb7NL3/pdb

• Classification: LYASE
• Organism(s): Paradendryphiella salina
• Expression System: Komagataella pastoris
• Mutation(s): Yes 


• Deposited: 2021-02-22 Released: 2022-03-02 
• Deposition Author(s): Fredslund, F., Welner, D.H., Wilkens, C.
• Funding Organization(s): European Union (EU)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.193 
• R-Value Work: 0.153 
• R-Value Observed: 0.155 

Starting Model: experimental

Literature

Crystal structure of Paradendryphiella salina PL7A alginate lyase mutant Y223F

Fredslund, F., Welner, D.H., Wilkens, C.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 25.66 kDa 
• Atom Count: 2,023 
• Modelled Residue Count: 227 
• Deposited Residue Count: 231 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alginate lyase (PL7)	A	231	Paradendryphiella salina	Mutation(s): 1  Gene Names: PsAlg7A EC: 4.2.2.3
UniProt
Find proteins for A0A485PVH1 (Paradendryphiella salina) Explore A0A485PVH1  Go to UniProtKB:  A0A485PVH1

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BTB	B [auth A]	2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C8 H19 N O5 OWMVSZAMULFTJU-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.193 
• R-Value Work: 0.153 
• R-Value Observed: 0.155 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 34.78	α = 90
b = 80.62	β = 90
c = 80.86	γ = 90

Software Package:

Software Name	Purpose
MxCuBE	data collection
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing
Coot	model building

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-03-02 
Deposition Author(s): Fredslund, F., Welner, D.H., Wilkens, C.

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Funding Organization	Location	Grant Number
European Union (EU)	Denmark	9082-00021B

Revision History  

• Version 1.0: 2022-03-02
  Type: Initial release
  
• Version 1.1: 2024-01-31
  Changes: Data collection, Refinement description
• Version 1.2: 2024-11-13
  Changes: Structure summary