7CC4 | pdb_00007cc4

A biodegradable plastic-degrading cutinase-like enzyme from the phyllosphere yeast Pseudozyma antarctica

• PDB DOI: https://doi.org/10.2210/pdb7CC4/pdb

• Classification: HYDROLASE
• Organism(s): Moesziomyces antarcticus
• Expression System: Moesziomyces antarcticus
• Mutation(s): No 


• Deposited: 2020-06-16 Released: 2020-07-15 
• Deposition Author(s): Suzuki, K., Watanabe, T., Kitamoto, H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.216 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.165 (Depositor), 0.180 (DCC) 
• R-Value Observed: 
  0.167 (Depositor) 

Starting Model: experimental

Literature

A biodegradable plastic-degrading cutinase-like enzyme from the phyllosphere yeast Pseudozyma antarctica

Suzuki, K., Watanabe, T., Kitamoto, H.

To be published.

Biological Assembly 1  

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

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

Biological Assembly 2  

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

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

Macromolecule Content 

• Total Structure Weight: 40.78 kDa 
• Atom Count: 3,050 
• Modeled Residue Count: 394 
• Deposited Residue Count: 396 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cutinase-like enzyme	A, B	198	Moesziomyces antarcticus	Mutation(s): 0  Gene Names: PaCLE1, CLE1, PSANT_00437
UniProt
Find proteins for S6BC01 (Pseudozyma antarctica) Explore S6BC01  Go to UniProtKB:  S6BC01

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NA	C [auth B]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.216 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.165 (Depositor), 0.180 (DCC) 
• R-Value Observed: 0.167 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 44.15	α = 90
b = 61.596	β = 90
c = 109.937	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
Aimless	data scaling
PDB_EXTRACT	data extraction
xia2	data reduction
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-07-15 
Deposition Author(s): Suzuki, K., Watanabe, T., Kitamoto, H.

Revision History  

• Version 1.0: 2020-07-15
  Type: Initial release
  
• Version 2.0: 2020-11-18
  Type: Coordinate replacement
  Reason: Model orientation/position
  Changes: Atomic model, Data collection, Database references, Derived calculations, Refinement description, Source and taxonomy
• Version 2.1: 2023-11-29
  Changes: Data collection, Database references, Refinement description
• Version 2.2: 2024-11-20
  Changes: Structure summary