RBY4I_89 protein (Rhodobacterales bacterium Y4I)

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

RBY4I_89

[S] COG3246 Uncharacterized conserved protein. (280 aa)

Predicted Functional Partners:

RBY4I_117

0.803

RBY4I_92

0.787

EDZ48235.1

0.579

lcdH

0.559

dxnG

0.526

dxnH

0.516

EDZ46080.1

0.496

RBY4I_123

0.480

Your Current Organism:

Rhodobacterales bacterium Y4I

NCBI taxonomy Id: 439496
Other names: R. bacterium Y4I

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
EDZ46080.1	RBY4I_89	RBY4I_1292	RBY4I_89	[C] COG1454 Alcohol dehydrogenase, class IV.	[S] COG3246 Uncharacterized conserved protein.	0.496
EDZ46080.1	dxnG	RBY4I_1292	RBY4I_1905	[C] COG1454 Alcohol dehydrogenase, class IV.	[I] COG1788 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit.	0.801
EDZ46080.1	dxnH	RBY4I_1292	RBY4I_1339	[C] COG1454 Alcohol dehydrogenase, class IV.	[I] COG2057 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit.	0.811
EDZ46080.1	lcdH	RBY4I_1292	RBY4I_1563	[C] COG1454 Alcohol dehydrogenase, class IV.	3-hydroxyacyl-CoA dehydrogenase, NAD-binding; Catalyzes the NAD(+)-dependent oxidation of L-carnitine to 3- dehydrocarnitine.	0.528
EDZ48235.1	RBY4I_89	RBY4I_3455	RBY4I_89	Cyclase family protein; [R] COG1878 Predicted metal-dependent hydrolase.	[S] COG3246 Uncharacterized conserved protein.	0.579
RBY4I_117	RBY4I_123	RBY4I_117	RBY4I_123	Putative carboxylesterase protein; [R] COG0596 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily).	Hypothetical protein.	0.480
RBY4I_117	RBY4I_89	RBY4I_117	RBY4I_89	Putative carboxylesterase protein; [R] COG0596 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily).	[S] COG3246 Uncharacterized conserved protein.	0.803
RBY4I_117	RBY4I_92	RBY4I_117	RBY4I_92	Putative carboxylesterase protein; [R] COG0596 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily).	Hypothetical protein.	0.774
RBY4I_123	RBY4I_117	RBY4I_123	RBY4I_117	Hypothetical protein.	Putative carboxylesterase protein; [R] COG0596 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily).	0.480
RBY4I_123	RBY4I_89	RBY4I_123	RBY4I_89	Hypothetical protein.	[S] COG3246 Uncharacterized conserved protein.	0.480
RBY4I_123	RBY4I_92	RBY4I_123	RBY4I_92	Hypothetical protein.	Hypothetical protein.	0.480
RBY4I_89	EDZ46080.1	RBY4I_89	RBY4I_1292	[S] COG3246 Uncharacterized conserved protein.	[C] COG1454 Alcohol dehydrogenase, class IV.	0.496
RBY4I_89	EDZ48235.1	RBY4I_89	RBY4I_3455	[S] COG3246 Uncharacterized conserved protein.	Cyclase family protein; [R] COG1878 Predicted metal-dependent hydrolase.	0.579
RBY4I_89	RBY4I_117	RBY4I_89	RBY4I_117	[S] COG3246 Uncharacterized conserved protein.	Putative carboxylesterase protein; [R] COG0596 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily).	0.803
RBY4I_89	RBY4I_123	RBY4I_89	RBY4I_123	[S] COG3246 Uncharacterized conserved protein.	Hypothetical protein.	0.480
RBY4I_89	RBY4I_92	RBY4I_89	RBY4I_92	[S] COG3246 Uncharacterized conserved protein.	Hypothetical protein.	0.787
RBY4I_89	dxnG	RBY4I_89	RBY4I_1905	[S] COG3246 Uncharacterized conserved protein.	[I] COG1788 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit.	0.526
RBY4I_89	dxnH	RBY4I_89	RBY4I_1339	[S] COG3246 Uncharacterized conserved protein.	[I] COG2057 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit.	0.516
RBY4I_89	lcdH	RBY4I_89	RBY4I_1563	[S] COG3246 Uncharacterized conserved protein.	3-hydroxyacyl-CoA dehydrogenase, NAD-binding; Catalyzes the NAD(+)-dependent oxidation of L-carnitine to 3- dehydrocarnitine.	0.559
RBY4I_92	RBY4I_117	RBY4I_92	RBY4I_117	Hypothetical protein.	Putative carboxylesterase protein; [R] COG0596 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily).	0.774