SEF19788.1 protein (Amycolatopsis pretoriensis)

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

SEF19788.1

Glycosyl hydrolase catalytic core. (262 aa)

Predicted Functional Partners:

SEF35779.1

0.565

SEF20550.1

0.554

rpoC

0.539

SEF19789.1

0.524

rpoB

0.521

SEF37934.1

0.493

SEF24241.1

0.478

SEF30989.1

0.464

SEF21414.1

0.419

SEF36123.1

0.417

Your Current Organism:

Amycolatopsis pretoriensis

NCBI taxonomy Id: 218821
Other names: A. pretoriensis, Amycolatopsis pretoriensis Labeda et al. 2003, DSM 44654, JCM 12673, NRRL B-24133, strain ARC OV1 0181

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 protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
SEF19788.1	SEF19789.1	SAMN05421837_101101	SAMN05421837_101102	Glycosyl hydrolase catalytic core.	DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains.	0.524
SEF19788.1	SEF20550.1	SAMN05421837_101101	SAMN05421837_101409	Glycosyl hydrolase catalytic core.	Protein of unknown function.	0.554
SEF19788.1	SEF21414.1	SAMN05421837_101101	SAMN05421837_101851	Glycosyl hydrolase catalytic core.	Choice-of-anchor A domain-containing protein.	0.419
SEF19788.1	SEF24241.1	SAMN05421837_101101	SAMN05421837_102625	Glycosyl hydrolase catalytic core.	Serine phosphatase RsbU, regulator of sigma subunit.	0.478
SEF19788.1	SEF30989.1	SAMN05421837_101101	SAMN05421837_105535	Glycosyl hydrolase catalytic core.	Hypothetical protein.	0.464
SEF19788.1	SEF35779.1	SAMN05421837_101101	SAMN05421837_108374	Glycosyl hydrolase catalytic core.	Alpha-L-arabinofuranosidase B (ABFB) domain-containing protein.	0.565
SEF19788.1	SEF36123.1	SAMN05421837_101101	SAMN05421837_109280	Glycosyl hydrolase catalytic core.	Hypothetical protein.	0.417
SEF19788.1	SEF37934.1	SAMN05421837_101101	SAMN05421837_116112	Glycosyl hydrolase catalytic core.	Protein of unknown function.	0.493
SEF19788.1	rpoB	SAMN05421837_101101	SAMN05421837_105679	Glycosyl hydrolase catalytic core.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.521
SEF19788.1	rpoC	SAMN05421837_101101	SAMN05421837_105680	Glycosyl hydrolase catalytic core.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.539
SEF19789.1	SEF19788.1	SAMN05421837_101102	SAMN05421837_101101	DNA-binding response regulator, NarL/FixJ family, contains REC and HTH domains.	Glycosyl hydrolase catalytic core.	0.524
SEF20550.1	SEF19788.1	SAMN05421837_101409	SAMN05421837_101101	Protein of unknown function.	Glycosyl hydrolase catalytic core.	0.554
SEF21414.1	SEF19788.1	SAMN05421837_101851	SAMN05421837_101101	Choice-of-anchor A domain-containing protein.	Glycosyl hydrolase catalytic core.	0.419
SEF21414.1	SEF30989.1	SAMN05421837_101851	SAMN05421837_105535	Choice-of-anchor A domain-containing protein.	Hypothetical protein.	0.551
SEF24241.1	SEF19788.1	SAMN05421837_102625	SAMN05421837_101101	Serine phosphatase RsbU, regulator of sigma subunit.	Glycosyl hydrolase catalytic core.	0.478
SEF30989.1	SEF19788.1	SAMN05421837_105535	SAMN05421837_101101	Hypothetical protein.	Glycosyl hydrolase catalytic core.	0.464
SEF30989.1	SEF21414.1	SAMN05421837_105535	SAMN05421837_101851	Hypothetical protein.	Choice-of-anchor A domain-containing protein.	0.551
SEF35779.1	SEF19788.1	SAMN05421837_108374	SAMN05421837_101101	Alpha-L-arabinofuranosidase B (ABFB) domain-containing protein.	Glycosyl hydrolase catalytic core.	0.565
SEF36123.1	SEF19788.1	SAMN05421837_109280	SAMN05421837_101101	Hypothetical protein.	Glycosyl hydrolase catalytic core.	0.417
SEF37934.1	SEF19788.1	SAMN05421837_116112	SAMN05421837_101101	Protein of unknown function.	Glycosyl hydrolase catalytic core.	0.493