nnrU 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

Co-occurrence

Co-expression

Experiments

Databases

Textmining

[Homology]

Score

nnrU

Putative NnrU protein. (255 aa)

Predicted Functional Partners:

RPA1486

0.800

RPA4601

0.616

RPA1001

0.593

norC

0.591

norB

0.591

norD

0.591

RPA4720

0.578

RPA0148

0.562

pgm2

0.522

RPA4714

0.504

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
RPA0148	RPA4601	RPA0148	RPA4601	Conserved hypothetical protein.	Conserved hypothetical protein.	0.775
RPA0148	nnrU	RPA0148	RPA1485	Conserved hypothetical protein.	Putative NnrU protein.	0.562
RPA1001	nnrU	RPA1001	RPA1485	Conserved hypothetical protein.	Putative NnrU protein.	0.593
RPA1486	RPA4601	RPA1486	RPA4601	Conserved hypothetical protein; COGs COG3213.	Conserved hypothetical protein.	0.448
RPA1486	RPA4720	RPA1486	RPA4720	Conserved hypothetical protein; COGs COG3213.	Conserved hypothetical protein.	0.419
RPA1486	nnrU	RPA1486	RPA1485	Conserved hypothetical protein; COGs COG3213.	Putative NnrU protein.	0.800
RPA1486	norB	RPA1486	RPA1456	Conserved hypothetical protein; COGs COG3213.	Nitric-oxide reductase subunit B; Observed by proteomics; Citation: Proteomics from VerBerkmoes et al. (2003) unpublished; Belongs to the heme-copper respiratory oxidase family.	0.752
RPA1486	norC	RPA1486	RPA1455	Conserved hypothetical protein; COGs COG3213.	Nitric-oxide reductase subunit C.	0.646
RPA1486	norD	RPA1486	RPA1458	Conserved hypothetical protein; COGs COG3213.	Dinitrification protein NorD.	0.645
RPA4601	RPA0148	RPA4601	RPA0148	Conserved hypothetical protein.	Conserved hypothetical protein.	0.775
RPA4601	RPA1486	RPA4601	RPA1486	Conserved hypothetical protein.	Conserved hypothetical protein; COGs COG3213.	0.448
RPA4601	RPA4714	RPA4601	RPA4714	Conserved hypothetical protein.	Hypothetical protein; Observed by proteomics; Citation: Proteomics from VerBerkmoes et al. (2003) unpublished.	0.775
RPA4601	nnrU	RPA4601	RPA1485	Conserved hypothetical protein.	Putative NnrU protein.	0.616
RPA4714	RPA4601	RPA4714	RPA4601	Hypothetical protein; Observed by proteomics; Citation: Proteomics from VerBerkmoes et al. (2003) unpublished.	Conserved hypothetical protein.	0.775
RPA4714	nnrU	RPA4714	RPA1485	Hypothetical protein; Observed by proteomics; Citation: Proteomics from VerBerkmoes et al. (2003) unpublished.	Putative NnrU protein.	0.504
RPA4720	RPA1486	RPA4720	RPA1486	Conserved hypothetical protein.	Conserved hypothetical protein; COGs COG3213.	0.419
RPA4720	nnrU	RPA4720	RPA1485	Conserved hypothetical protein.	Putative NnrU protein.	0.578
nnrU	RPA0148	RPA1485	RPA0148	Putative NnrU protein.	Conserved hypothetical protein.	0.562
nnrU	RPA1001	RPA1485	RPA1001	Putative NnrU protein.	Conserved hypothetical protein.	0.593
nnrU	RPA1486	RPA1485	RPA1486	Putative NnrU protein.	Conserved hypothetical protein; COGs COG3213.	0.800