baeS_2 protein (Clostridium chromiireducens)

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.

Knowledge-based Evidence

from curated databases

textmining

Assay-based Predictions

experimentally determined

co-expression

Genomic Predictions

gene neighborhood

gene co-occurrence

gene fusions

Your Input:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

baeS_2

Signal transduction histidine-protein kinase BaeS. (478 aa)

Predicted Functional Partners:

srrA_3

0.984

barA_2

0.968

srrA_1

0.906

srrA_8

0.894

hssR_2

0.890

phoP_2

0.884

regX3_3

0.883

phoP_3

0.879

phoP_1

0.878

srrA_5

0.878

Your Current Organism:

Clostridium chromiireducens

NCBI taxonomy Id: 225345
Other names: C. chromiireducens, Clostridium chromiireducens Inglett et al. 2011, DSM 23318, KCTC 5935, strain GCAF-1

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
baeS_2	barA_2	CLCHR_10000	CLCHR_16870	Signal transduction histidine-protein kinase BaeS.	Signal transduction histidine-protein kinase BarA.	0.968
baeS_2	hssR_2	CLCHR_10000	CLCHR_35010	Signal transduction histidine-protein kinase BaeS.	Heme response regulator HssR.	0.890
baeS_2	phoP_1	CLCHR_10000	CLCHR_05740	Signal transduction histidine-protein kinase BaeS.	Alkaline phosphatase synthesis transcriptional regulatory protein PhoP.	0.878
baeS_2	phoP_2	CLCHR_10000	CLCHR_13010	Signal transduction histidine-protein kinase BaeS.	Alkaline phosphatase synthesis transcriptional regulatory protein PhoP.	0.884
baeS_2	phoP_3	CLCHR_10000	CLCHR_22420	Signal transduction histidine-protein kinase BaeS.	Alkaline phosphatase synthesis transcriptional regulatory protein PhoP.	0.879
baeS_2	regX3_3	CLCHR_10000	CLCHR_37330	Signal transduction histidine-protein kinase BaeS.	Sensory transduction protein regX3.	0.883
baeS_2	srrA_1	CLCHR_10000	CLCHR_02420	Signal transduction histidine-protein kinase BaeS.	Transcriptional regulatory protein SrrA.	0.906
baeS_2	srrA_3	CLCHR_10000	CLCHR_09990	Signal transduction histidine-protein kinase BaeS.	Transcriptional regulatory protein SrrA.	0.984
baeS_2	srrA_5	CLCHR_10000	CLCHR_12280	Signal transduction histidine-protein kinase BaeS.	Transcriptional regulatory protein SrrA.	0.878
baeS_2	srrA_8	CLCHR_10000	CLCHR_21500	Signal transduction histidine-protein kinase BaeS.	Transcriptional regulatory protein SrrA.	0.894
barA_2	baeS_2	CLCHR_16870	CLCHR_10000	Signal transduction histidine-protein kinase BarA.	Signal transduction histidine-protein kinase BaeS.	0.968
barA_2	hssR_2	CLCHR_16870	CLCHR_35010	Signal transduction histidine-protein kinase BarA.	Heme response regulator HssR.	0.967
barA_2	phoP_1	CLCHR_16870	CLCHR_05740	Signal transduction histidine-protein kinase BarA.	Alkaline phosphatase synthesis transcriptional regulatory protein PhoP.	0.967
barA_2	phoP_2	CLCHR_16870	CLCHR_13010	Signal transduction histidine-protein kinase BarA.	Alkaline phosphatase synthesis transcriptional regulatory protein PhoP.	0.967
barA_2	phoP_3	CLCHR_16870	CLCHR_22420	Signal transduction histidine-protein kinase BarA.	Alkaline phosphatase synthesis transcriptional regulatory protein PhoP.	0.967
barA_2	regX3_3	CLCHR_16870	CLCHR_37330	Signal transduction histidine-protein kinase BarA.	Sensory transduction protein regX3.	0.972
barA_2	srrA_1	CLCHR_16870	CLCHR_02420	Signal transduction histidine-protein kinase BarA.	Transcriptional regulatory protein SrrA.	0.967
barA_2	srrA_3	CLCHR_16870	CLCHR_09990	Signal transduction histidine-protein kinase BarA.	Transcriptional regulatory protein SrrA.	0.967
barA_2	srrA_5	CLCHR_16870	CLCHR_12280	Signal transduction histidine-protein kinase BarA.	Transcriptional regulatory protein SrrA.	0.967
barA_2	srrA_8	CLCHR_16870	CLCHR_21500	Signal transduction histidine-protein kinase BarA.	Transcriptional regulatory protein SrrA.	0.967