sync_2467 protein (Synechococcus sp. CC9311)

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

sync_2467

Identified by match to protein family HMM PF01230. (113 aa)

Predicted Functional Partners:

sync_2466

0.789

sync_2465

0.787

sync_2468

0.585

rpoB

0.409

Your Current Organism:

Synechococcus sp. CC9311

NCBI taxonomy Id: 64471
Other names: S. sp. CC9311

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 proteins in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
rpoB	sync_2467	sync_2358	sync_2467	DNA-directed RNA polymerase, beta subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	Identified by match to protein family HMM PF01230.	0.409
sync_2465	sync_2466	sync_2465	sync_2466	Possible high light inducible protein.	Peroxisomal fatty acyl CoA ABC transporter (P-FAT) family, ATP-binding protein; Identified by match to protein family HMM PF00005; match to protein family HMM PF06472.	0.800
sync_2465	sync_2467	sync_2465	sync_2467	Possible high light inducible protein.	Identified by match to protein family HMM PF01230.	0.787
sync_2465	sync_2468	sync_2465	sync_2468	Possible high light inducible protein.	Mg chelatase homolog; Identified by match to protein family HMM PF01078; match to protein family HMM TIGR00368.	0.555
sync_2466	sync_2465	sync_2466	sync_2465	Peroxisomal fatty acyl CoA ABC transporter (P-FAT) family, ATP-binding protein; Identified by match to protein family HMM PF00005; match to protein family HMM PF06472.	Possible high light inducible protein.	0.800
sync_2466	sync_2467	sync_2466	sync_2467	Peroxisomal fatty acyl CoA ABC transporter (P-FAT) family, ATP-binding protein; Identified by match to protein family HMM PF00005; match to protein family HMM PF06472.	Identified by match to protein family HMM PF01230.	0.789
sync_2466	sync_2468	sync_2466	sync_2468	Peroxisomal fatty acyl CoA ABC transporter (P-FAT) family, ATP-binding protein; Identified by match to protein family HMM PF00005; match to protein family HMM PF06472.	Mg chelatase homolog; Identified by match to protein family HMM PF01078; match to protein family HMM TIGR00368.	0.555
sync_2467	rpoB	sync_2467	sync_2358	Identified by match to protein family HMM PF01230.	DNA-directed RNA polymerase, beta subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.409
sync_2467	sync_2465	sync_2467	sync_2465	Identified by match to protein family HMM PF01230.	Possible high light inducible protein.	0.787
sync_2467	sync_2466	sync_2467	sync_2466	Identified by match to protein family HMM PF01230.	Peroxisomal fatty acyl CoA ABC transporter (P-FAT) family, ATP-binding protein; Identified by match to protein family HMM PF00005; match to protein family HMM PF06472.	0.789
sync_2467	sync_2468	sync_2467	sync_2468	Identified by match to protein family HMM PF01230.	Mg chelatase homolog; Identified by match to protein family HMM PF01078; match to protein family HMM TIGR00368.	0.585
sync_2468	sync_2465	sync_2468	sync_2465	Mg chelatase homolog; Identified by match to protein family HMM PF01078; match to protein family HMM TIGR00368.	Possible high light inducible protein.	0.555
sync_2468	sync_2466	sync_2468	sync_2466	Mg chelatase homolog; Identified by match to protein family HMM PF01078; match to protein family HMM TIGR00368.	Peroxisomal fatty acyl CoA ABC transporter (P-FAT) family, ATP-binding protein; Identified by match to protein family HMM PF00005; match to protein family HMM PF06472.	0.555
sync_2468	sync_2467	sync_2468	sync_2467	Mg chelatase homolog; Identified by match to protein family HMM PF01078; match to protein family HMM TIGR00368.	Identified by match to protein family HMM PF01230.	0.585