8J45

Crystal structure of a Pichia pastoris-expressed IsPETase variant

• PDB DOI: https://doi.org/10.2210/pdb8J45/pdb

• Classification: HYDROLASE
• Organism(s): Piscinibacter sakaiensis
• Expression System: Komagataella pastoris
• Mutation(s): Yes 


• Deposited: 2023-04-19 Released: 2024-01-17 
• Deposition Author(s): Li, X., He, H.L., Long, X., Niu, D., Huang, J.-W., Chen, C.-C., Guo, R.-T.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.49 Å
• R-Value Free: 0.160 
• R-Value Work: 0.136 
• R-Value Observed: 0.137 

Literature

Complete decomposition of poly(ethylene terephthalate) by crude PET hydrolytic enzyme produced in Pichia pastoris

Chen, C.C., Li, X., Min, J., Zeng, Z., Ning, Z., He, H., Long, X., Niu, D., Peng, R., Liu, X., Yang, Y., Huang, J.W., Guo, R.T.

(2023) Chem Eng J : 148418

• DOI: https://doi.org/10.1016/j.cej.2023.148418

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 28.48 kDa 
• Atom Count: 2,355 
• Modelled Residue Count: 263 
• Deposited Residue Count: 263 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Poly(ethylene terephthalate) hydrolase	A	263	Piscinibacter sakaiensis	Mutation(s): 5  Gene Names: ISF6_4831 EC: 3.1.1.101
UniProt
Find proteins for A0A0K8P6T7 (Ideonella sakaiensis (strain NBRC 110686 / TISTR 2288 / 201-F6)) Explore A0A0K8P6T7  Go to UniProtKB:  A0A0K8P6T7

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	B [auth A], C [auth A], D [auth A], E [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.49 Å
• R-Value Free: 0.160 
• R-Value Work: 0.136 
• R-Value Observed: 0.137 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.074	α = 90
b = 51.271	β = 90
c = 84.539	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
SAINT	data reduction
SAINT	data scaling
PDB_EXTRACT	data extraction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-01-17 
Deposition Author(s): Li, X., He, H.L., Long, X., Niu, D., Huang, J.-W., Chen, C.-C., Guo, R.-T.

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

Revision History  

• Version 1.0: 2024-01-17
  Type: Initial release