9HL5 | pdb_00009hl5

Crystal structure of halo-tolerant PETase from marine metagenome (HaloPETase1)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.16 Å
  • R-Value Free: 
    0.129 (Depositor), 0.129 (DCC) 
  • R-Value Work: 
    0.110 (Depositor), 0.110 (DCC) 
  • R-Value Observed: 
    0.110 (Depositor) 

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


This is version 1.0 of the entry. See complete history


Literature

A third type of PETase from the marine Halopseudomonas lineage.

Turak, O.Gagsteiger, A.Upadhyay, A.Kriegel, M.Salein, P.Bohnke-Brandt, S.Agarwal, S.Borchert, E.Hocker, B.

(2025) Protein Sci 34: e70305-e70305

  • DOI: https://doi.org/10.1002/pro.70305
  • Primary Citation of Related Structures:  
    9HL5

  • PubMed Abstract: 

    The enzymatic degradation of polyethylene terephthalate (PET) offers a sustainable solution for PET recycling. Over the past two decades, more than 100 PETases have been characterized, primarily exhibiting similar sequences and structures. Here, we report PET-degrading α/β hydrolases, including HaloPETase1 from the marine Halopseudomonas lineage, thereby extending the narrow sequence space by novel features at the active site. The crystal structure of HaloPETase1 was determined to a resolution of 1.16 Å, revealing a unique active site architecture and a lack of the canonical π-stacking clamp found in PETases so far. Further, variations in active site composition and loop structures were observed. Additionally, we found five more enzymes from the same lineage, two of which have a high similarity to type IIa bacterial PETases, while the other three resemble HaloPETase1. All these enzymes exhibited high salt tolerance ranging from 2.5 to 5 M NaCl, leading to higher total product releases upon PET degradation at 40 or 50°C. Based on these findings, we propose an extension of the existing PETase classification system to include type III PETases.


  • Organizational Affiliation
    • Department of Biochemistry, University of Bayreuth, Bayreuth, Germany.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Alpha/beta hydrolase268uncultured bacteriumMutation(s): 0 
Gene Names: BXT89_15940
UniProt
Find proteins for A0A1S8DDV9 (Halopseudomonas pachastrellae)
Explore A0A1S8DDV9 
Go to UniProtKB:  A0A1S8DDV9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A1S8DDV9
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 5 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PG4
Query on PG4

Download Ideal Coordinates CCD File 
H [auth A]TETRAETHYLENE GLYCOL
C8 H18 O5
UWHCKJMYHZGTIT-UHFFFAOYSA-N
PGE
Query on PGE

Download Ideal Coordinates CCD File 
EA [auth A],
G [auth A],
P [auth A],
X [auth A],
Z [auth A]
TRIETHYLENE GLYCOL
C6 H14 O4
ZIBGPFATKBEMQZ-UHFFFAOYSA-N
PEG
Query on PEG

Download Ideal Coordinates CCD File 
I [auth A],
J [auth A],
K [auth A]
DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
GOL
Query on GOL

Download Ideal Coordinates CCD File 
B [auth A]
BA [auth A]
C [auth A]
CA [auth A]
D [auth A]
B [auth A],
BA [auth A],
C [auth A],
CA [auth A],
D [auth A],
DA [auth A],
E [auth A],
F [auth A],
L [auth A],
O [auth A],
S [auth A],
T [auth A],
U [auth A],
W [auth A]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
EDO
Query on EDO

Download Ideal Coordinates CCD File 
AA [auth A]
M [auth A]
N [auth A]
Q [auth A]
R [auth A]
AA [auth A],
M [auth A],
N [auth A],
Q [auth A],
R [auth A],
V [auth A],
Y [auth A]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.16 Å
  • R-Value Free:  0.129 (Depositor), 0.129 (DCC) 
  • R-Value Work:  0.110 (Depositor), 0.110 (DCC) 
  • R-Value Observed: 0.110 (Depositor) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 52.34α = 90
b = 70.53β = 90
c = 72.46γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research Foundation (DFG)Germany--

Revision History  (Full details and data files)

  • Version 1.0: 2025-10-01
    Type: Initial release