9XUE | pdb_00009xue

Crystal structure of the deep-sea halophilic PET hydrolase dsPETase01

PDB DOI: https://doi.org/10.2210/pdb9XUE/pdb

Classification: HYDROLASE
Organism(s): Aetokthonos hydrillicola Thurmond2011
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2025-11-24 Released: 2026-09-23
Deposition Author(s): Li, X., Zhang, M.Z., Huang, S.Q., Zeng, C., Huang, J.-W., Chen, C.-C., Guo, R.-T.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.61 Å
R-Value Free:
0.197 (Depositor), 0.202 (DCC)
R-Value Work:
0.157 (Depositor), 0.169 (DCC)
R-Value Observed:
0.159 (Depositor)

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

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This is version 1.0 of the entry. See complete history.

Literature

Crystal structure of the deep-sea halophilic PET hydrolase dsPETase01

Li, X., Zhang, M.Z., Huang, S.Q., Zeng, C., Huang, J.-W., Chen, C.-C., Guo, R.-T.

To be published.

Macromolecule Content

Total Structure Weight: 54.76 kDa
Atom Count: 4,530
Modeled Residue Count: 512
Deposited Residue Count: 512
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PET hydrolase	A, B	256	Aetokthonos hydrillicola Thurmond2011	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PEG Query on PEG Download:Ideal Coordinates CCD File SDF format, chain C [auth B] MOL2 format, chain C [auth B] mmCIF format, chain C [auth B]	C [auth B]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain C [auth B] Interactions & Density Focus chain C [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.61 Å
R-Value Free: 0.197 (Depositor), 0.202 (DCC)
R-Value Work: 0.157 (Depositor), 0.169 (DCC)
R-Value Observed: 0.159 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.279	α = 90
b = 44.916	β = 92.82
c = 73.16	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data scaling
PDB_EXTRACT	data extraction
HKL-2000	data reduction
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-09-23

Deposition Author(s):

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

Revision History (Full details and data files)

Version 1.0: 2026-09-23
Type: Initial release