RPD_3206 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_3206

Short-chain dehydrogenase/reductase SDR. (255 aa)

Predicted Functional Partners:

nuoC

0.690

RPD_2691

0.675

RPD_3207

0.623

RPD_3208

0.542

RPD_3553

0.494

RPD_1863

0.424

RPD_2249

0.424

RPD_1832

0.412

RPD_3210

0.408

RPD_1248

0.406

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 accession	node2 accession	node1 annotation	node2 annotation	score
RPD_1248	RPD_1832	RPD_1248	RPD_1832	acyl-CoA dehydrogenase-like.	Phenylacetic acid degradation protein paaN.	0.544
RPD_1248	RPD_1863	RPD_1248	RPD_1863	acyl-CoA dehydrogenase-like.	Aminoglycoside phosphotransferase.	0.773
RPD_1248	RPD_2249	RPD_1248	RPD_2249	acyl-CoA dehydrogenase-like.	MaoC-like dehydratase.	0.580
RPD_1248	RPD_3206	RPD_1248	RPD_3206	acyl-CoA dehydrogenase-like.	Short-chain dehydrogenase/reductase SDR.	0.406
RPD_1248	RPD_3553	RPD_1248	RPD_3553	acyl-CoA dehydrogenase-like.	Short chain enoyl-CoA hydratase / 3-hydroxyacyl-CoA dehydrogenase; Belongs to the enoyl-CoA hydratase/isomerase family.	0.852
RPD_1248	nuoC	RPD_1248	RPD_1328	acyl-CoA dehydrogenase-like.	NADH dehydrogenase I, D subunit; NDH-1 shuttles electrons from NADH, via FMN and iron-sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient; In the N-terminal section; belongs to the complex I 30 kDa subunit family.	0.604
RPD_1832	RPD_1248	RPD_1832	RPD_1248	Phenylacetic acid degradation protein paaN.	acyl-CoA dehydrogenase-like.	0.544
RPD_1832	RPD_3206	RPD_1832	RPD_3206	Phenylacetic acid degradation protein paaN.	Short-chain dehydrogenase/reductase SDR.	0.412
RPD_1832	RPD_3208	RPD_1832	RPD_3208	Phenylacetic acid degradation protein paaN.	Short-chain dehydrogenase/reductase SDR.	0.412
RPD_1832	RPD_3210	RPD_1832	RPD_3210	Phenylacetic acid degradation protein paaN.	acyl-CoA dehydrogenase-like.	0.544
RPD_1832	RPD_3553	RPD_1832	RPD_3553	Phenylacetic acid degradation protein paaN.	Short chain enoyl-CoA hydratase / 3-hydroxyacyl-CoA dehydrogenase; Belongs to the enoyl-CoA hydratase/isomerase family.	0.871
RPD_1832	nuoC	RPD_1832	RPD_1328	Phenylacetic acid degradation protein paaN.	NADH dehydrogenase I, D subunit; NDH-1 shuttles electrons from NADH, via FMN and iron-sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be ubiquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient; In the N-terminal section; belongs to the complex I 30 kDa subunit family.	0.475
RPD_1863	RPD_1248	RPD_1863	RPD_1248	Aminoglycoside phosphotransferase.	acyl-CoA dehydrogenase-like.	0.773
RPD_1863	RPD_2249	RPD_1863	RPD_2249	Aminoglycoside phosphotransferase.	MaoC-like dehydratase.	0.488
RPD_1863	RPD_3206	RPD_1863	RPD_3206	Aminoglycoside phosphotransferase.	Short-chain dehydrogenase/reductase SDR.	0.424
RPD_1863	RPD_3210	RPD_1863	RPD_3210	Aminoglycoside phosphotransferase.	acyl-CoA dehydrogenase-like.	0.773
RPD_2249	RPD_1248	RPD_2249	RPD_1248	MaoC-like dehydratase.	acyl-CoA dehydrogenase-like.	0.580
RPD_2249	RPD_1863	RPD_2249	RPD_1863	MaoC-like dehydratase.	Aminoglycoside phosphotransferase.	0.488
RPD_2249	RPD_3206	RPD_2249	RPD_3206	MaoC-like dehydratase.	Short-chain dehydrogenase/reductase SDR.	0.424
RPD_2249	RPD_3210	RPD_2249	RPD_3210	MaoC-like dehydratase.	acyl-CoA dehydrogenase-like.	0.572