8J17 | pdb_00008j17

Crystal structure of IsPETase variant

• PDB DOI: https://doi.org/10.2210/pdb8J17/pdb

• Classification: HYDROLASE
• Organism(s): Piscinibacter sakaiensis
• Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
• Mutation(s): Yes 


• Deposited: 2023-04-12 Released: 2023-11-29 
• Deposition Author(s): Yin, Q.D., Wang, Y.X.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.97 Å
• R-Value Free: 
  0.213 (Depositor), 0.210 (DCC) 
• R-Value Work: 
  0.175 (Depositor), 0.170 (DCC) 
• R-Value Observed: 
  0.177 (Depositor) 

Starting Model: experimental

Literature

Efficient polyethylene terephthalate biodegradation by an engineered Ideonella sakaiensis PETase with a fixed substrate-binding W156 residue

Yin, Q., Zhang, J., Ma, S., Gu, T., Wang, M., You, S., Ye, S., Su, R., Wang, Y., Qi, W.

(2013) Green Chem 

• DOI: https://doi.org/10.1039/d3gc03663d

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 86.25 kDa 
• Atom Count: 6,530 
• Modeled Residue Count: 786 
• Deposited Residue Count: 816 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Poly(ethylene terephthalate) hydrolase	A, B, C	272	Piscinibacter sakaiensis	Mutation(s): 2  Gene Names: ISF6_4831 EC: 3.1.1.101
UniProt
Find proteins for A0A0K8P6T7 (Piscinibacter sakaiensis) Explore A0A0K8P6T7  Go to UniProtKB:  A0A0K8P6T7

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.97 Å
• R-Value Free:  0.213 (Depositor), 0.210 (DCC) 
• R-Value Work:  0.175 (Depositor), 0.170 (DCC) 
• R-Value Observed: 0.177 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.56	α = 90
b = 233.8	β = 90
c = 163.69	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PRODD	data processing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-11-29 
Deposition Author(s): Yin, Q.D., Wang, Y.X.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	21621004
National Natural Science Foundation of China (NSFC)	China	22078239

Revision History  

• Version 1.0: 2023-11-29
  Type: Initial release
  
• Version 1.1: 2024-11-06
  Changes: Structure summary