[English] 日本語
Yorodumi- PDB-8fjp: Cryo-EM structure of native mosquito salivary gland surface prote... -
+Open data
-Basic information
Entry | Database: PDB / ID: 8fjp | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | Cryo-EM structure of native mosquito salivary gland surface protein 1 (SGS1) | |||||||||
Components | salivary gland surface protein 1 | |||||||||
Keywords | ALLERGEN / Rhs/YD-repeats / mosquito salivary protein / receptor domain / pathogen transmission | |||||||||
Function / homology | Tox-SGS domain / Salivary glad secreted protein domain toxin / Rhs repeat-associated core / membrane / AAEL009993-PA Function and homology information | |||||||||
Biological species | Aedes aegypti (yellow fever mosquito) | |||||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.3 Å | |||||||||
Authors | Liu, S. / Xia, X. / Calvo, E. / Zhou, Z.H. | |||||||||
Funding support | United States, 2items
| |||||||||
Citation | Journal: Nat Commun / Year: 2023 Title: Native structure of mosquito salivary protein uncovers domains relevant to pathogen transmission. Authors: Shiheng Liu / Xian Xia / Eric Calvo / Z Hong Zhou / Abstract: Female mosquitoes inject saliva into vertebrate hosts during blood feeding. This process transmits mosquito-borne human pathogens that collectively cause ~1,000,000 deaths/year. Among the most ...Female mosquitoes inject saliva into vertebrate hosts during blood feeding. This process transmits mosquito-borne human pathogens that collectively cause ~1,000,000 deaths/year. Among the most abundant and conserved proteins secreted by female salivary glands is a high-molecular weight protein called salivary gland surface protein 1 (SGS1) that facilitates pathogen transmission, but its mechanism remains elusive. Here, we determine the native structure of SGS1 by the cryoID approach, showing that the 3364 amino-acid protein has a Tc toxin-like Rhs/YD shell, four receptor domains, and a set of C-terminal daisy-chained helices. These helices are partially shielded inside the Rhs/YD shell and poised to transform into predicted transmembrane helices. This transformation, and the numerous receptor domains on the surface of SGS1, are likely key in facilitating sporozoite/arbovirus invasion into the salivary glands and manipulating the host's immune response. | |||||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 8fjp.cif.gz | 586.3 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb8fjp.ent.gz | 471.6 KB | Display | PDB format |
PDBx/mmJSON format | 8fjp.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 8fjp_validation.pdf.gz | 1.2 MB | Display | wwPDB validaton report |
---|---|---|---|---|
Full document | 8fjp_full_validation.pdf.gz | 1.2 MB | Display | |
Data in XML | 8fjp_validation.xml.gz | 87.5 KB | Display | |
Data in CIF | 8fjp_validation.cif.gz | 129.7 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/fj/8fjp ftp://data.pdbj.org/pub/pdb/validation_reports/fj/8fjp | HTTPS FTP |
-Related structure data
Related structure data | 29245MC M: map data used to model this data C: citing same article (ref.) |
---|---|
Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
-Assembly
Deposited unit |
|
---|---|
1 |
|
-Components
#1: Protein | Mass: 380453.688 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Aedes aegypti (yellow fever mosquito) / References: UniProt: Q16U82 |
---|---|
#2: Polysaccharide | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose |
#3: Sugar | ChemComp-NAG / |
Has ligand of interest | Y |
-Experimental details
-Experiment
Experiment | Method: ELECTRON MICROSCOPY |
---|---|
EM experiment | Aggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction |
-Sample preparation
Component | Name: salivary gland surface protein 1 (SGS1) / Type: COMPLEX / Entity ID: #1 / Source: NATURAL |
---|---|
Source (natural) | Organism: Aedes aegypti (yellow fever mosquito) |
Buffer solution | pH: 7.4 Details: 137 mM NaCl, 2.7 mM KCl, 4.3 mM Na2HPO4, and 1.4 mM KH2PO4, pH 7.4 |
Specimen | Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES |
Specimen support | Grid material: COPPER / Grid mesh size: 400 divisions/in. / Grid type: PELCO Ultrathin Carbon with Lacey Carbon |
Vitrification | Instrument: FEI VITROBOT MARK IV / Cryogen name: ETHANE / Humidity: 100 % / Chamber temperature: 281.15 K |
-Electron microscopy imaging
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
---|---|
Microscopy | Model: FEI TITAN KRIOS |
Electron gun | Electron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM |
Electron lens | Mode: BRIGHT FIELD / Nominal magnification: 105000 X / Nominal defocus max: 3000 nm / Nominal defocus min: 1500 nm / Cs: 2.7 mm / C2 aperture diameter: 50 µm |
Specimen holder | Cryogen: NITROGEN / Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER |
Image recording | Electron dose: 30 e/Å2 / Detector mode: SUPER-RESOLUTION / Film or detector model: GATAN K2 SUMMIT (4k x 4k) |
EM imaging optics | Energyfilter name: GIF Quantum LS / Energyfilter slit width: 20 eV |
-Processing
Software | Name: PHENIX / Version: 1.20.1_4487: / Classification: refinement | |||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
EM software |
| |||||||||||||||||||||||||||||||||
CTF correction | Type: PHASE FLIPPING AND AMPLITUDE CORRECTION | |||||||||||||||||||||||||||||||||
Symmetry | Point symmetry: C1 (asymmetric) | |||||||||||||||||||||||||||||||||
3D reconstruction | Resolution: 3.3 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 161092 / Symmetry type: POINT | |||||||||||||||||||||||||||||||||
Atomic model building | B value: 109.4 / Space: REAL | |||||||||||||||||||||||||||||||||
Refine LS restraints |
|