Structural basis for self-assembly of a cytolytic pore lined by protein and lipid

Tanaka, K; Caaveiro, J.M.M; Morante, K; Gonzalez-Manas, J.M; Tsumoto, K.

Macromolecule Content

Unique protein chains: 1

4TSP

Crystal structure of FraC with DHPC bound (crystal form II)

DOI: 10.2210/pdb4tsp/pdb

Classification: TOXIN
Deposited: 2014-06-19 Released: 2015-03-04
Deposition author(s): Caaveiro, J.M.M., Tanaka, K., Tsumoto, K.
Organism: Actinia fragacea
Expression System: Escherichia coli BL21(DE3)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.15 Å
R-Value Free: 0.247
R-Value Work: 0.200

wwPDB Validation 3D Report Full Report

Literature

Macromolecules

Classification: TOXIN

Total Structure Weight: 42447.80

Macromolecule Entities
Molecule	Chains	Length	Organism	Details
Fragaceatoxin C	A, B	179	Actinia fragacea	Gene Name(s):
Metabolic Pathways Maps: Reactions: ESCHER BiGG
Protein Feature View - UniProtKB AC: B9W5G6 UniProt Full Protein Feature View for B9W5G6 Find similar proteins by: Sequence \| Structure Show Detailed Protein Feature View for B9W5G6/4TSP

Membrane Protein

Source: mpstruc | Group: ALPHA-HELICAL

Subgroup Name: Adventitious Membrane Proteins: Alpha-helical Pore-forming Toxins.

Protein Name: FraC eukaryotic pore-forming toxin from sea anemone

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions	3D Interactions
HXG Query on HXG Download SDF File Download CCD File	A, B	1,2-dihexanoyl-sn-glycero-3-phosphocholine N, (Synonym) C₂₀ H₄₁ N O₈ P DVZARZBAWHITHR-GOSISDBHSA-O	Poseview Image of HXG in 4TSP Help Black dashed lines indicate hydrogen bonds, salt bridges, and metal interactions. Green solid line show hydrophobic interactions and green dashed lines show π-π and π-cation interactions. Source Information Interactions are determined by geometric criteria as described in K. Stierand, M. Rarey (2010), Drawing the PDB: Protein-ligand complexes in two dimensions, ACS Med. Chem. Lett., DOI: 10.1021/ml100164p. Ions and some metal complexes are excluded, as well as cases where no interaction profile could be generated. Poseview diagrams can be calculated for approximately 92% of the remaining complexes in the PDB. PoseView is developed at the Center for Bioinformatics Hamburg and jointly provided with BioSolveIT as a community service at the PDB. A stand-alone version is provided by BioSolveIT.	Ligand Explorer NGL Binding Pocket (JSmol) Electron Density (JSmol)
PC Query on PC Download SDF File Download CCD File	B	PHOSPHOCHOLINE C₅ H₁₅ N O₄ P YHHSONZFOIEMCP-UHFFFAOYSA-O	Poseview Image of PC in 4TSP Help Black dashed lines indicate hydrogen bonds, salt bridges, and metal interactions. Green solid line show hydrophobic interactions and green dashed lines show π-π and π-cation interactions. Source Information Interactions are determined by geometric criteria as described in K. Stierand, M. Rarey (2010), Drawing the PDB: Protein-ligand complexes in two dimensions, ACS Med. Chem. Lett., DOI: 10.1021/ml100164p. Ions and some metal complexes are excluded, as well as cases where no interaction profile could be generated. Poseview diagrams can be calculated for approximately 92% of the remaining complexes in the PDB. PoseView is developed at the Center for Bioinformatics Hamburg and jointly provided with BioSolveIT as a community service at the PDB. A stand-alone version is provided by BioSolveIT.	Ligand Explorer NGL Binding Pocket (JSmol) Electron Density (JSmol)
SO4 Query on SO4 Download SDF File Download CCD File	A, B	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L	Poseview Image of SO4 in 4TSP Help Black dashed lines indicate hydrogen bonds, salt bridges, and metal interactions. Green solid line show hydrophobic interactions and green dashed lines show π-π and π-cation interactions. Source Information Interactions are determined by geometric criteria as described in K. Stierand, M. Rarey (2010), Drawing the PDB: Protein-ligand complexes in two dimensions, ACS Med. Chem. Lett., DOI: 10.1021/ml100164p. Ions and some metal complexes are excluded, as well as cases where no interaction profile could be generated. Poseview diagrams can be calculated for approximately 92% of the remaining complexes in the PDB. PoseView is developed at the Center for Bioinformatics Hamburg and jointly provided with BioSolveIT as a community service at the PDB. A stand-alone version is provided by BioSolveIT.	Ligand Explorer NGL Binding Pocket (JSmol) Electron Density (JSmol)
PO4 Query on PO4 Download SDF File Download CCD File	A, B	PHOSPHATE ION O₄ P NBIIXXVUZAFLBC-UHFFFAOYSA-K	Poseview Image of PO4 in 4TSP Help Black dashed lines indicate hydrogen bonds, salt bridges, and metal interactions. Green solid line show hydrophobic interactions and green dashed lines show π-π and π-cation interactions. Source Information Interactions are determined by geometric criteria as described in K. Stierand, M. Rarey (2010), Drawing the PDB: Protein-ligand complexes in two dimensions, ACS Med. Chem. Lett., DOI: 10.1021/ml100164p. Ions and some metal complexes are excluded, as well as cases where no interaction profile could be generated. Poseview diagrams can be calculated for approximately 92% of the remaining complexes in the PDB. PoseView is developed at the Center for Bioinformatics Hamburg and jointly provided with BioSolveIT as a community service at the PDB. A stand-alone version is provided by BioSolveIT.	Ligand Explorer NGL Binding Pocket (JSmol) Electron Density (JSmol)