pnbA 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.

Known Interactions

from curated databases

experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

Others

textmining

co-expression

protein homology

Your Input:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

pnbA

Putative nitroreductase. (232 aa)

Predicted Functional Partners:

RPA0582

0.572

RPA0682

0.533

RPA4087

0.533

RPA1710

0.515

RPA1664

0.498

RPA3761

0.482

RPA3026

0.460

RPA0574

0.441

RPA0683

0.441

RPA3509

0.441

Your Current Organism:

Rhodopseudomonas palustris CGA009

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

Send network to Cytoscape

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 protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
RPA0574	RPA0682	RPA0574	RPA0682	Possible ABC transporter.	Possible ABC transporter ATP-binding component, membrane bound.	0.623
RPA0574	RPA3026	RPA0574	RPA3026	Possible ABC transporter.	Similar to abortive infection protein.	0.484
RPA0574	RPA4087	RPA0574	RPA4087	Possible ABC transporter.	ABC-2 type transport system permease and double ATP-binding protein fusion.	0.622
RPA0574	pnbA	RPA0574	RPA1711	Possible ABC transporter.	Putative nitroreductase.	0.441
RPA0582	pnbA	RPA0582	RPA1711	Conserved unknown protein; Observed by proteomics; Citation: Proteomics from VerBerkmoes et al. (2003) unpublished.	Putative nitroreductase.	0.572
RPA0682	RPA0574	RPA0682	RPA0574	Possible ABC transporter ATP-binding component, membrane bound.	Possible ABC transporter.	0.623
RPA0682	RPA0683	RPA0682	RPA0683	Possible ABC transporter ATP-binding component, membrane bound.	Possible ABC transporter permease component.	0.943
RPA0682	RPA3026	RPA0682	RPA3026	Possible ABC transporter ATP-binding component, membrane bound.	Similar to abortive infection protein.	0.663
RPA0682	RPA3509	RPA0682	RPA3509	Possible ABC transporter ATP-binding component, membrane bound.	Permease, ABC-2-type transport system.	0.640
RPA0682	RPA4087	RPA0682	RPA4087	Possible ABC transporter ATP-binding component, membrane bound.	ABC-2 type transport system permease and double ATP-binding protein fusion.	0.891
RPA0682	pnbA	RPA0682	RPA1711	Possible ABC transporter ATP-binding component, membrane bound.	Putative nitroreductase.	0.533
RPA0683	RPA0682	RPA0683	RPA0682	Possible ABC transporter permease component.	Possible ABC transporter ATP-binding component, membrane bound.	0.943
RPA0683	RPA3026	RPA0683	RPA3026	Possible ABC transporter permease component.	Similar to abortive infection protein.	0.485
RPA0683	RPA4087	RPA0683	RPA4087	Possible ABC transporter permease component.	ABC-2 type transport system permease and double ATP-binding protein fusion.	0.753
RPA0683	pnbA	RPA0683	RPA1711	Possible ABC transporter permease component.	Putative nitroreductase.	0.441
RPA1664	pnbA	RPA1664	RPA1711	Glyoxalase/Bleomycin resistance protein/dioxygenase domain; Observed by proteomics; Citation: Proteomics from VerBerkmoes et al. (2003) unpublished.	Putative nitroreductase.	0.498
RPA1710	pnbA	RPA1710	RPA1711	Putative acyl-CoA dehydrogenase; Observed by proteomics; Citation: Proteomics from VerBerkmoes et al. (2003) unpublished.	Putative nitroreductase.	0.515
RPA3026	RPA0574	RPA3026	RPA0574	Similar to abortive infection protein.	Possible ABC transporter.	0.484
RPA3026	RPA0682	RPA3026	RPA0682	Similar to abortive infection protein.	Possible ABC transporter ATP-binding component, membrane bound.	0.663
RPA3026	RPA0683	RPA3026	RPA0683	Similar to abortive infection protein.	Possible ABC transporter permease component.	0.485