comEA protein (Clostridium thermoalcaliphilum)

Nodes:

Network nodes represent proteins

splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

Node Color

colored nodes:
query proteins and first shell of interactors

white nodes:
second shell of interactors

Node Content

empty nodes:
proteins of unknown 3D structure

filled nodes:
a 3D structure is known or predicted

Edges:

Edges represent protein-protein associations

associations are meant to be specific and meaningful, i.e. proteins jointly contribute to a shared function; this does not necessarily mean they are physically binding to each other.

Known Interactions

from curated databases

experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

Others

textmining

co-expression

protein homology

Your Input:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

comEA

ComE operon protein 1. (209 aa)

Predicted Functional Partners:

epsF

0.777

epsE

0.751

comC

0.695

pncC

0.677

dacF_3

0.646

selD

0.560

prs_1

0.544

OPJ56337.1

0.505

OPJ54733.1

0.505

ssbA_1

0.496

Your Current Organism:

Clostridium thermoalcaliphilum

NCBI taxonomy Id: 29349
Other names: ATCC 51508, CIP 105528, DSM 7309, [. thermoalcaliphilum, [Clostridium] thermoalcaliphilum, strain JW/YL23-2

Send network to Cytoscape

Export your current network:

... as a bitmap image:

download

file format is 'PNG': portable network graphic

... as a high-resolution bitmap:

download

same PNG format, but at higher resolution

... as a vector graphic:

download

SVG: scalable vector graphic - can be opened and edited in Illustrator, CorelDraw, Dia, etc

... as short tabular text output:

download

TSV: tab separated values - can be opened in Excel and Cytoscape (lists only one-way edges: A-B)

... as tabular text output:

download

TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

... as an XML summary:

download

structured XML interaction data, according to the 'PSI-MI' data standard

... protein node degrees:

download

node degree of proteins in your network (given the current score cut-off)

... network coordinates:

download

a flat-file format describing the coordinates and colors of nodes in the network

... protein sequences:

download

MFA: multi-fasta format - containing the aminoacid sequences in the network

... protein annotations:

download

a tab-delimited file describing the names, domains and descriptions of proteins in your network

... functional annotations:

download

a tab-delimited file containing all known functional terms of proteins in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
OPJ54733.1	comC	CLOTH_19540	CLOTH_07370	Hypothetical protein.	Type 4 prepilin-like protein leader peptide-processing enzyme.	0.616
OPJ54733.1	comEA	CLOTH_19540	CLOTH_13320	Hypothetical protein.	ComE operon protein 1.	0.505
OPJ54733.1	epsE	CLOTH_19540	CLOTH_07330	Hypothetical protein.	Type II secretion system protein E.	0.887
OPJ54733.1	epsF	CLOTH_19540	CLOTH_07350	Hypothetical protein.	Type II secretion system protein F.	0.799
OPJ54733.1	ssbA_1	CLOTH_19540	CLOTH_08160	Hypothetical protein.	Single-stranded DNA-binding protein A.	0.428
OPJ56337.1	comC	CLOTH_07410	CLOTH_07370	Hypothetical protein.	Type 4 prepilin-like protein leader peptide-processing enzyme.	0.844
OPJ56337.1	comEA	CLOTH_07410	CLOTH_13320	Hypothetical protein.	ComE operon protein 1.	0.505
OPJ56337.1	epsE	CLOTH_07410	CLOTH_07330	Hypothetical protein.	Type II secretion system protein E.	0.934
OPJ56337.1	epsF	CLOTH_07410	CLOTH_07350	Hypothetical protein.	Type II secretion system protein F.	0.904
OPJ56337.1	ssbA_1	CLOTH_07410	CLOTH_08160	Hypothetical protein.	Single-stranded DNA-binding protein A.	0.428
comC	OPJ54733.1	CLOTH_07370	CLOTH_19540	Type 4 prepilin-like protein leader peptide-processing enzyme.	Hypothetical protein.	0.616
comC	OPJ56337.1	CLOTH_07370	CLOTH_07410	Type 4 prepilin-like protein leader peptide-processing enzyme.	Hypothetical protein.	0.844
comC	comEA	CLOTH_07370	CLOTH_13320	Type 4 prepilin-like protein leader peptide-processing enzyme.	ComE operon protein 1.	0.695
comC	epsE	CLOTH_07370	CLOTH_07330	Type 4 prepilin-like protein leader peptide-processing enzyme.	Type II secretion system protein E.	0.964
comC	epsF	CLOTH_07370	CLOTH_07350	Type 4 prepilin-like protein leader peptide-processing enzyme.	Type II secretion system protein F.	0.962
comC	pncC	CLOTH_07370	CLOTH_01150	Type 4 prepilin-like protein leader peptide-processing enzyme.	Nicotinamide-nucleotide amidohydrolase PncC; Belongs to the CinA family.	0.535
comEA	OPJ54733.1	CLOTH_13320	CLOTH_19540	ComE operon protein 1.	Hypothetical protein.	0.505
comEA	OPJ56337.1	CLOTH_13320	CLOTH_07410	ComE operon protein 1.	Hypothetical protein.	0.505
comEA	comC	CLOTH_13320	CLOTH_07370	ComE operon protein 1.	Type 4 prepilin-like protein leader peptide-processing enzyme.	0.695
comEA	dacF_3	CLOTH_13320	CLOTH_13310	ComE operon protein 1.	D-alanyl-D-alanine carboxypeptidase DacF precursor; Belongs to the peptidase S11 family.	0.646