8CA9

Cryo-EM structure of the Cibeles-Demetra 3:3 heterocomplex from Galleria mellonella saliva

  • Classification: UNKNOWN FUNCTION
  • Organism(s): Galleria mellonella
  • Mutation(s): No 

  • Deposited: 2023-01-24 Released: 2023-10-04 
  • Deposition Author(s): Spinola-Amilibia, M., Arias-Palomo, E.
  • Funding Organization(s): Roechling Stiftung, NATO Science for Peace and Security Program, Junta de Castilla y Leon, Consejeria de Educacion y Cultura y Fondo Social Europeo, Spanish Ministry of Science, Innovation, and Universities, Generalitat de Catalunya, Spanish National Research Council

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.29 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Plastic degradation by insect hexamerins: Near-atomic resolution structures of the polyethylene-degrading proteins from the wax worm saliva.

Spinola-Amilibia, M.Illanes-Vicioso, R.Ruiz-L Formula See Text Pez, E.Colomer-Vidal, P.Rodriguez, F.V.Peces Perez, R.Arias, C.F.Torroba, T.Sol Formula See Text, M.Arias-Palomo, E.Bertocchini, F.

(2023) Sci Adv 9: eadi6813-eadi6813

  • DOI: https://doi.org/10.1126/sciadv.adi6813
  • Primary Citation of Related Structures:  
    8CA9, 8CAD, 8CAN, 8PO9

  • PubMed Abstract: 

    Plastic waste management is a pressing ecological, social, and economic challenge. The saliva of the lepidopteran Galleria mellonella larvae is capable of oxidizing and depolymerizing polyethylene in hours at room temperature. Here, we analyze by cryo-electron microscopy (cryo-EM) G. mellonella 's saliva directly from the native source. The three-dimensional reconstructions reveal that the buccal secretion is mainly composed of four hexamerins belonging to the hemocyanin/phenoloxidase family, renamed Demetra, Cibeles, Ceres, and a previously unidentified factor termed Cora. Functional assays show that this factor, as its counterparts Demetra and Ceres, is also able to oxidize and degrade polyethylene. The cryo-EM data and the x-ray analysis from purified fractions show that they self-assemble primarily into three macromolecular complexes with striking structural differences that likely modulate their activity. Overall, these results establish the ground to further explore the hexamerins' functionalities, their role in vivo, and their eventual biotechnological application.


  • Organizational Affiliation

    Department of Structural and Chemical Biology, Centro de Investigaciones Biológicas Margarita Salas, CSIC, 28040 Madrid, Spain.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Arylphorin
A, B, C
702Galleria mellonellaMutation(s): 0 
UniProt
Find proteins for Q24995 (Galleria mellonella)
Explore Q24995 
Go to UniProtKB:  Q24995
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ24995
Glycosylation
Glycosylation Sites: 2
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Demetra
D, E, F
700Galleria mellonellaMutation(s): 0 
UniProt
Find proteins for A0A6J1WVA9 (Galleria mellonella)
Explore A0A6J1WVA9 
Go to UniProtKB:  A0A6J1WVA9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A6J1WVA9
Glycosylation
Glycosylation Sites: 2
Sequence Annotations
Expand
  • Reference Sequence
Oligosaccharides

Help

Entity ID: 3
MoleculeChains Length2D Diagram Glycosylation3D Interactions
alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
G, I, K
7N-Glycosylation
Glycosylation Resources
GlyTouCan:  G07617FP
GlyCosmos:  G07617FP
GlyGen:  G07617FP
Entity ID: 4
MoleculeChains Length2D Diagram Glycosylation3D Interactions
alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
H, J, L
6N-Glycosylation
Glycosylation Resources
GlyTouCan:  G09724ZC
GlyCosmos:  G09724ZC
GlyGen:  G09724ZC
Entity ID: 5
MoleculeChains Length2D Diagram Glycosylation3D Interactions
alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
M, O, Q
6N-Glycosylation
Glycosylation Resources
GlyTouCan:  G56014GC
GlyCosmos:  G56014GC
GlyGen:  G56014GC
Entity ID: 6
MoleculeChains Length2D Diagram Glycosylation3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
N, P, R
3N-Glycosylation
Glycosylation Resources
GlyTouCan:  G15407YE
GlyCosmos:  G15407YE
GlyGen:  G15407YE
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.29 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION3.1
MODEL REFINEMENTPHENIX1.19

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Roechling StiftungGermany--
NATO Science for Peace and Security ProgramBelgiumSPS G5536
Junta de Castilla y Leon, Consejeria de Educacion y Cultura y Fondo Social EuropeoSpainBU263P18
Spanish Ministry of Science, Innovation, and UniversitiesSpainPID2019-111215RB-100
Generalitat de CatalunyaSpain2017 SGR 1192
Spanish Ministry of Science, Innovation, and UniversitiesSpainPID2020-120275GB-I00
Spanish National Research CouncilSpain--

Revision History  (Full details and data files)

  • Version 1.0: 2023-10-04
    Type: Initial release
  • Version 1.1: 2024-11-13
    Changes: Data collection, Structure summary