2PR0

Crystal structure of Sylvaticin, a new secreted protein from Pythium Sylvaticum

PDB DOI: https://doi.org/10.2210/pdb2PR0/pdb

Classification: TOXIN
Organism(s): Globisporangium sylvaticum
Mutation(s): No

Deposited: 2007-05-03 Released: 2008-03-18
Deposition Author(s): Lascombe, M.B., Prange, T., Retailleau, P.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.72 Å
R-Value Free: 0.186
R-Value Work: 0.194
R-Value Observed: 0.204

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Structure of sylvaticin, a new alpha-elicitin-like protein from Pythium sylvaticum.

Lascombe, M.B., Retailleau, P., Ponchet, M., Industri, B., Blein, J.P., Prange, T.

(2007) Acta Crystallogr D Biol Crystallogr 63: 1102-1108

PubMed: 17881828 Search on PubMed
DOI: https://doi.org/10.1107/S0907444907043363
Primary Citation of Related Structures:
2POS, 2PR0

PubMed Abstract:
The structure of sylvaticin, a 10 kDa major pythin protein excreted by the parasitic oomycete Pythium sylvaticum, has been determined. Although closely related to alpha-elicitins in its biological response, toxicity and overall structure, sylvaticin presents a number of structural features that make it an unusual member of the elicitin class. Elicitins possess a large hydrophobic cavity and the mechanism of the systemic acquired resistance induced in planta is known to proceed through lipid transport and complexation within this cavity. Unlike other elicitins, sylvaticin contains tryptophan residues, one of which points inwards towards the central cavity, thus limiting access to sterols. In the case of sylvaticin, the sterol-transport mechanism is likely to be of less importance compared with other members of the elicitin family and still remains to be fully characterized.

Organizational Affiliation

Laboratoire de Cristallographie et RMN Biologiques, Université Paris Descartes, UMR 8015 CNRS, Faculté de Pharmacie, 4 Avenue de l'Observatoire, 75006 Paris, France. marie-bernard.lascombe@univ-paris5.fr

Macromolecule Content

Total Structure Weight: 21.18 kDa
Atom Count: 1,683
Modelled Residue Count: 188
Deposited Residue Count: 188
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
sylvaticin	A, B	94	Globisporangium sylvaticum	Mutation(s): 0
UniProt
Find proteins for D0VWX7 (Globisporangium sylvaticum) Explore D0VWX7 Go to UniProtKB: D0VWX7
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	D0VWX7
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
TRS Query on TRS Download Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain F [auth B] MOL2 format, chain D [auth A] MOL2 format, chain F [auth B]	D [auth A], F [auth B]	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C₄ H₁₂ N O₃ LENZDBCJOHFCAS-UHFFFAOYSA-O		Interactions Focus chain D [auth A] Focus chain F [auth B] Interactions & Density Focus chain D [auth A] Focus chain F [auth B]
NI Query on NI Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain E [auth B] MOL2 format, chain C [auth A] MOL2 format, chain E [auth B]	C [auth A], E [auth B]	NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain E [auth B] Interactions & Density Focus chain C [auth A] Focus chain E [auth B]