RPD_3264 protein (Rhodopseudomonas palustris BisB5)

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

RPD_3264

Signal transduction histidine kinase. (261 aa)

Predicted Functional Partners:

RPD_1368

0.849

RPD_2783

0.804

RPD_4076

0.651

RPD_3087

0.619

RPD_0837

0.597

RPD_3678

0.584

RPD_1366

0.566

RPD_3263

0.548

RPD_1496

0.541

RPD_3277

0.539

Your Current Organism:

Rhodopseudomonas palustris BisB5

NCBI taxonomy Id: 316057
Other names: R. palustris BisB5, Rhodopseudomonas palustris str. BisB5, Rhodopseudomonas palustris strain BisB5

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 annotation	node2 annotation	score
RPD_0837	RPD_1368	ATP-binding region, ATPase-like.	Response regulator receiver.	0.418
RPD_0837	RPD_1496	ATP-binding region, ATPase-like.	Response regulator receiver modulated diguanylate phosphodiesterase.	0.616
RPD_0837	RPD_3087	ATP-binding region, ATPase-like.	ATP-binding region, ATPase-like.	0.832
RPD_0837	RPD_3263	ATP-binding region, ATPase-like.	Diguanylate cyclase/phosphodiesterase.	0.693
RPD_0837	RPD_3264	ATP-binding region, ATPase-like.	Signal transduction histidine kinase.	0.597
RPD_0837	RPD_3277	ATP-binding region, ATPase-like.	PAS/PAC sensor hybrid histidine kinase.	0.941
RPD_0837	RPD_3678	ATP-binding region, ATPase-like.	ATP-binding region, ATPase-like.	0.910
RPD_0837	RPD_4076	ATP-binding region, ATPase-like.	Hpt sensor hybrid histidine kinase.	0.973
RPD_1366	RPD_1368	RNA polymerase, sigma-24 subunit, ECF subfamily; Belongs to the sigma-70 factor family. ECF subfamily.	Response regulator receiver.	0.876
RPD_1366	RPD_3264	RNA polymerase, sigma-24 subunit, ECF subfamily; Belongs to the sigma-70 factor family. ECF subfamily.	Signal transduction histidine kinase.	0.566
RPD_1368	RPD_0837	Response regulator receiver.	ATP-binding region, ATPase-like.	0.418
RPD_1368	RPD_1366	Response regulator receiver.	RNA polymerase, sigma-24 subunit, ECF subfamily; Belongs to the sigma-70 factor family. ECF subfamily.	0.876
RPD_1368	RPD_2783	Response regulator receiver.	Response regulator receiver.	0.664
RPD_1368	RPD_3264	Response regulator receiver.	Signal transduction histidine kinase.	0.849
RPD_1368	RPD_3277	Response regulator receiver.	PAS/PAC sensor hybrid histidine kinase.	0.632
RPD_1368	RPD_3678	Response regulator receiver.	ATP-binding region, ATPase-like.	0.533
RPD_1368	RPD_4076	Response regulator receiver.	Hpt sensor hybrid histidine kinase.	0.891
RPD_1496	RPD_0837	Response regulator receiver modulated diguanylate phosphodiesterase.	ATP-binding region, ATPase-like.	0.616
RPD_1496	RPD_3087	Response regulator receiver modulated diguanylate phosphodiesterase.	ATP-binding region, ATPase-like.	0.602
RPD_1496	RPD_3263	Response regulator receiver modulated diguanylate phosphodiesterase.	Diguanylate cyclase/phosphodiesterase.	0.638