vieA protein (Rhodopseudomonas palustris CGA009)

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

vieA

Putative cylclic diguanylate phosphodiesterase (EAL). (404 aa)

Predicted Functional Partners:

RPA0767

0.922

RPA3616

0.845

RPA3832

0.844

RPA0286

0.837

RPA1818

0.833

RPA4565

0.833

RPA1657

0.831

RPA3076

0.831

RPA3022

0.828

RPA1790

0.827

Your Current Organism:

Rhodopseudomonas palustris CGA009

NCBI taxonomy Id: 258594
Other names: R. palustris CGA009, Rhodopseudomonas palustris str. CGA009, Rhodopseudomonas palustris strain CGA009

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
RPA0286	RPA0767	RPA0286	RPA0767	Putative diguanylate cyclase (GGDEF) with HAMP domain.	Putative diguanylate cyclase (GGDEF) with PAS/PAC domain.	0.480
RPA0286	RPA1818	RPA0286	RPA1818	Putative diguanylate cyclase (GGDEF) with HAMP domain.	Putative diguanylate cyclase (GGDEF).	0.497
RPA0286	RPA3616	RPA0286	RPA3616	Putative diguanylate cyclase (GGDEF) with HAMP domain.	Putative diguanylate cyclase (GGDEF) with PAS/PAC domain.	0.485
RPA0286	RPA3832	RPA0286	RPA3832	Putative diguanylate cyclase (GGDEF) with HAMP domain.	Putative diguanylate cyclase (GGDEF) with PAS/PAC domain.	0.677
RPA0286	vieA	RPA0286	RPA4516	Putative diguanylate cyclase (GGDEF) with HAMP domain.	Putative cylclic diguanylate phosphodiesterase (EAL).	0.837
RPA0767	RPA0286	RPA0767	RPA0286	Putative diguanylate cyclase (GGDEF) with PAS/PAC domain.	Putative diguanylate cyclase (GGDEF) with HAMP domain.	0.480
RPA0767	RPA1818	RPA0767	RPA1818	Putative diguanylate cyclase (GGDEF) with PAS/PAC domain.	Putative diguanylate cyclase (GGDEF).	0.509
RPA0767	RPA3616	RPA0767	RPA3616	Putative diguanylate cyclase (GGDEF) with PAS/PAC domain.	Putative diguanylate cyclase (GGDEF) with PAS/PAC domain.	0.459
RPA0767	RPA3832	RPA0767	RPA3832	Putative diguanylate cyclase (GGDEF) with PAS/PAC domain.	Putative diguanylate cyclase (GGDEF) with PAS/PAC domain.	0.608
RPA0767	vieA	RPA0767	RPA4516	Putative diguanylate cyclase (GGDEF) with PAS/PAC domain.	Putative cylclic diguanylate phosphodiesterase (EAL).	0.922
RPA1657	RPA3616	RPA1657	RPA3616	Putative diguanylate cyclase (GGDEF).	Putative diguanylate cyclase (GGDEF) with PAS/PAC domain.	0.400
RPA1657	RPA3832	RPA1657	RPA3832	Putative diguanylate cyclase (GGDEF).	Putative diguanylate cyclase (GGDEF) with PAS/PAC domain.	0.455
RPA1657	vieA	RPA1657	RPA4516	Putative diguanylate cyclase (GGDEF).	Putative cylclic diguanylate phosphodiesterase (EAL).	0.831
RPA1790	RPA1818	RPA1790	RPA1818	Putative diguanylate cyclase (GGDEF).	Putative diguanylate cyclase (GGDEF).	0.419
RPA1790	RPA3832	RPA1790	RPA3832	Putative diguanylate cyclase (GGDEF).	Putative diguanylate cyclase (GGDEF) with PAS/PAC domain.	0.450
RPA1790	vieA	RPA1790	RPA4516	Putative diguanylate cyclase (GGDEF).	Putative cylclic diguanylate phosphodiesterase (EAL).	0.827
RPA1818	RPA0286	RPA1818	RPA0286	Putative diguanylate cyclase (GGDEF).	Putative diguanylate cyclase (GGDEF) with HAMP domain.	0.497
RPA1818	RPA0767	RPA1818	RPA0767	Putative diguanylate cyclase (GGDEF).	Putative diguanylate cyclase (GGDEF) with PAS/PAC domain.	0.509
RPA1818	RPA1790	RPA1818	RPA1790	Putative diguanylate cyclase (GGDEF).	Putative diguanylate cyclase (GGDEF).	0.419
RPA1818	RPA3022	RPA1818	RPA3022	Putative diguanylate cyclase (GGDEF).	Putative diguanylate cyclase (GGDEF).	0.437