PANDIT+

KeywordFamilyClanGene   

Entry: Elicitin (PF00964) * this family does not contain any human sequence in the seed alignment although some of the annotation data are human specific [read more]

Display a clan
Very fast search for clan entries. The
search can be done either by clan ID
(e.g. CL0192) or by clan name (e.g. GPCR_A).
Display a clan
Very fast search for clan entries. The
search can be done either by clan ID
(e.g. CL0192) or by clan name (e.g. GPCR_A).

Pfam summary

Description

Elicitin

Elicitins form a novel class of plant necrotic proteins which are secreted by Phytophthora and Pythium fungi, parasites of many economically important crops. These proteins induce leaf necrosis in infected plants and elicit an incompatible hypersensitive-like reaction, leading to the development of a systemic acquired resistance against a range of fungal and bacterial plant pathogens [1].
 
Literature1. Boissy G, de La Fortelle E, Kahn R, Huet JC, Bricogne G, Pernollet JC, Brunie S; Structure 1996;4:1429-1439.Crystal structure of a fungal elicitor secreted by Phytophthora cryptogea, a member of a novel class of plant necrotic proteins. PUBMED:8994969
 
 
InterPro entry IPR002200
 

Alignment

New Hampshire tree

The seed alignment for this family in the PANDIT database contains 3 aligned sequences:

  ELI1_PHYCR/21-118   ELI2_PHYCR/21-118   ELIB_PHYCI/1-98  

The full alignment for this family in the Pfam database contains 238 aligned sequences

Species in the seed alignment

List of species covered in the seed alignment. The number in brackets denotes the number of sequences taken from each organism.

  Phytophthora cryptogea (2);   Phytophthora cinnamomi (1);  

The full alignment covers 34 species.

Pre-computed estimates from Markov codon substitution models (explanation)

Following are maximum-likelihood estimates and log-likelihood scores from codon models M0, M1, M2, M7 and M8, implemented in PAML v.4.1

Model name  

Model M0

Model M1

Model M2

Model M7

Model M8

Log-likelihood score  

-539.64-535.729548-535.098473-535.339277-535.33928

Tree Length  

23.2223.2189323.2189323.2189323.21893

κ  

0.550.9415922.1695630.5759020.575903

ω-ratio  

ω=0.00293p0=0.900365 ~ ω0=0.001983
p1=0.099635 ~ ω1=1
p0=0.880947 ~ ω0=0.031124
p1=0 ~ ω1=1
p2=0.119053 ~ ω2=46.024586
ω~Β(0.207356,41.360583)p0=0.999999 ~ ω~Β(0.207356,41.360803)
p1=1e-06 ~ ω=1.001635

P-value for testing  
positive selection  

M1 vs M2: P-value=0.53202
domain classification: conserved
M7 vs M8: P-value=1
domain classification: conserved

Maximum-likelihood estimates and log-likelihood scores from codon models Nonsynonymous and Dual implemented in HYPHY

Model name  

Model Nonsynonymous

Model Dual

Log-likelihood score  

-535.10797-531.12091

Mean ω-ratio  

ω = 2.67766ω = 22459559.13362

Coeff. of variation  
of ω-ratio  

CVω = 2.68717CVω = 5.42077
 

Annotations

InteractionsThis domain has 1 known interaction:
PF00964;

StructuresThis domain has 10 structures:
Notation: PDB_ID (PDB chain, PDB residues)

Gene Ontologies
Cellular component
 extracellular region[GO:0005576]
Biological Process
 defense response[GO:0006952]
 pathogenesis[GO:0009405]

KEGG Pathways - for genes coding for sequences from full alignment
Metabolism
Carbohydrate Metabolism
Butanoate metabolism [KEGG]
Xenobiotics Biodegradation and Metabolism
Benzoate degradation via CoA ligation [KEGG]
 

Expression data (explanation)

 
Bgee expression data - for genes coding for sequences from seed alignment     Click here for overview of Bgee data

none


HumanProteinpedia expression data - for human genes coding for sequences from full alignment     Click here for overview of Human Proteinpedia data
 
Healthy tissues
Disease tissues

Human disease association

 
Genetic Association Database - data for human genes coding for sequences from full alignment
 
Associated diseases and disorders

Links to OMIM - for human genes coding for sequences from full alignment