SCL67832.1 protein (Micromonospora chersina)

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

SCL67832.1

RNA polymerase sigma-70 factor, ECF subfamily. (326 aa)

Predicted Functional Partners:

SCL67829.1

0.993

SCL59300.1

0.683

SCL59046.1

0.674

SCL66076.1

0.654

SCL61293.1

0.650

SCL65672.1

0.650

SCL66097.1

0.647

SCL69017.1

0.644

SCL54326.1

0.634

SCL64237.1

0.621

Your Current Organism:

Micromonospora chersina

NCBI taxonomy Id: 47854
Other names: ATCC 53710, DSM 44151, IFO 15963, JCM 9459, M. chersina, NBRC 15963, strain M956-1

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
SCL54326.1	SCL59046.1	GA0070603_1779	GA0070603_2738	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.722
SCL54326.1	SCL59300.1	GA0070603_1779	GA0070603_2786	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.412
SCL54326.1	SCL61293.1	GA0070603_1779	GA0070603_3178	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.751
SCL54326.1	SCL64237.1	GA0070603_1779	GA0070603_3751	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, sigma-E family; Belongs to the sigma-70 factor family. ECF subfamily.	0.673
SCL54326.1	SCL65672.1	GA0070603_1779	GA0070603_4019	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, sigma-E family; Belongs to the sigma-70 factor family. ECF subfamily.	0.666
SCL54326.1	SCL66076.1	GA0070603_1779	GA0070603_4097	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.683
SCL54326.1	SCL66097.1	GA0070603_1779	GA0070603_4101	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.740
SCL54326.1	SCL67829.1	GA0070603_1779	GA0070603_4586	RNA polymerase sigma-70 factor, ECF subfamily.	Hypothetical protein.	0.445
SCL54326.1	SCL67832.1	GA0070603_1779	GA0070603_4587	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.634
SCL54326.1	SCL69017.1	GA0070603_1779	GA0070603_4959	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.703
SCL59046.1	SCL54326.1	GA0070603_2738	GA0070603_1779	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.722
SCL59046.1	SCL64237.1	GA0070603_2738	GA0070603_3751	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, sigma-E family; Belongs to the sigma-70 factor family. ECF subfamily.	0.727
SCL59046.1	SCL65672.1	GA0070603_2738	GA0070603_4019	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, sigma-E family; Belongs to the sigma-70 factor family. ECF subfamily.	0.670
SCL59046.1	SCL66097.1	GA0070603_2738	GA0070603_4101	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.745
SCL59046.1	SCL67829.1	GA0070603_2738	GA0070603_4586	RNA polymerase sigma-70 factor, ECF subfamily.	Hypothetical protein.	0.445
SCL59046.1	SCL67832.1	GA0070603_2738	GA0070603_4587	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.674
SCL59300.1	SCL54326.1	GA0070603_2786	GA0070603_1779	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.412
SCL59300.1	SCL64237.1	GA0070603_2786	GA0070603_3751	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, sigma-E family; Belongs to the sigma-70 factor family. ECF subfamily.	0.703
SCL59300.1	SCL65672.1	GA0070603_2786	GA0070603_4019	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, sigma-E family; Belongs to the sigma-70 factor family. ECF subfamily.	0.655
SCL59300.1	SCL66097.1	GA0070603_2786	GA0070603_4101	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.709