RPD_3115 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

Co-occurrence

Co-expression

Experiments

Databases

Textmining

[Homology]

Score

RPD_3115

Conserved hypothetical protein. (382 aa)

Predicted Functional Partners:

RPD_0807

0.996

RPD_3553

0.996

RPD_3114

0.978

RPD_0932

0.963

RPD_3106

0.945

RPD_2843

0.939

RPD_1435

0.938

RPD_0270

0.936

RPD_1127

0.934

RPD_1880

0.932

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_0270	RPD_0807	acyl-CoA dehydrogenase-like.	3-hydroxyacyl-CoA dehydrogenase, NAD-binding; Belongs to the enoyl-CoA hydratase/isomerase family.	0.932
RPD_0270	RPD_0932	acyl-CoA dehydrogenase-like.	3-hydroxyacyl-CoA dehydrogenase.	0.570
RPD_0270	RPD_1127	acyl-CoA dehydrogenase-like.	Phosphate butyryltransferase.	0.446
RPD_0270	RPD_1880	acyl-CoA dehydrogenase-like.	Protein of unknown function DUF35.	0.634
RPD_0270	RPD_3114	acyl-CoA dehydrogenase-like.	Protein of unknown function DUF35.	0.636
RPD_0270	RPD_3115	acyl-CoA dehydrogenase-like.	Conserved hypothetical protein.	0.936
RPD_0270	RPD_3553	acyl-CoA dehydrogenase-like.	Short chain enoyl-CoA hydratase / 3-hydroxyacyl-CoA dehydrogenase; Belongs to the enoyl-CoA hydratase/isomerase family.	0.814
RPD_0807	RPD_0270	3-hydroxyacyl-CoA dehydrogenase, NAD-binding; Belongs to the enoyl-CoA hydratase/isomerase family.	acyl-CoA dehydrogenase-like.	0.932
RPD_0807	RPD_0932	3-hydroxyacyl-CoA dehydrogenase, NAD-binding; Belongs to the enoyl-CoA hydratase/isomerase family.	3-hydroxyacyl-CoA dehydrogenase.	0.938
RPD_0807	RPD_1127	3-hydroxyacyl-CoA dehydrogenase, NAD-binding; Belongs to the enoyl-CoA hydratase/isomerase family.	Phosphate butyryltransferase.	0.757
RPD_0807	RPD_1435	3-hydroxyacyl-CoA dehydrogenase, NAD-binding; Belongs to the enoyl-CoA hydratase/isomerase family.	butyryl-CoA:acetate CoA transferase.	0.969
RPD_0807	RPD_2843	3-hydroxyacyl-CoA dehydrogenase, NAD-binding; Belongs to the enoyl-CoA hydratase/isomerase family.	Citrate synthase; Belongs to the citrate synthase family.	0.732
RPD_0807	RPD_3106	3-hydroxyacyl-CoA dehydrogenase, NAD-binding; Belongs to the enoyl-CoA hydratase/isomerase family.	acyl-CoA dehydrogenase-like.	0.980
RPD_0807	RPD_3115	3-hydroxyacyl-CoA dehydrogenase, NAD-binding; Belongs to the enoyl-CoA hydratase/isomerase family.	Conserved hypothetical protein.	0.996
RPD_0807	RPD_3553	3-hydroxyacyl-CoA dehydrogenase, NAD-binding; Belongs to the enoyl-CoA hydratase/isomerase family.	Short chain enoyl-CoA hydratase / 3-hydroxyacyl-CoA dehydrogenase; Belongs to the enoyl-CoA hydratase/isomerase family.	0.962
RPD_0932	RPD_0270	3-hydroxyacyl-CoA dehydrogenase.	acyl-CoA dehydrogenase-like.	0.570
RPD_0932	RPD_0807	3-hydroxyacyl-CoA dehydrogenase.	3-hydroxyacyl-CoA dehydrogenase, NAD-binding; Belongs to the enoyl-CoA hydratase/isomerase family.	0.938
RPD_0932	RPD_1435	3-hydroxyacyl-CoA dehydrogenase.	butyryl-CoA:acetate CoA transferase.	0.940
RPD_0932	RPD_2843	3-hydroxyacyl-CoA dehydrogenase.	Citrate synthase; Belongs to the citrate synthase family.	0.415
RPD_0932	RPD_3106	3-hydroxyacyl-CoA dehydrogenase.	acyl-CoA dehydrogenase-like.	0.737