sync_0823 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_0823

Potassium channel; Identified by match to protein family HMM PF07885. (246 aa)

Predicted Functional Partners:

sync_0822

0.773

sync_2059

0.601

sync_2479

0.590

sync_1907

0.589

sync_0591

0.587

sync_0642

0.580

sync_0813

0.555

sync_1356

0.538

sync_2803

0.527

gyrB

0.523

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
gyrB	sync_0823	sync_0092	sync_0823	DNA gyrase, B subunit; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.	Potassium channel; Identified by match to protein family HMM PF07885.	0.523
sync_0591	sync_0823	sync_0591	sync_0823	Membrane protein, putative.	Potassium channel; Identified by match to protein family HMM PF07885.	0.587
sync_0591	sync_1356	sync_0591	sync_1356	Membrane protein, putative.	Hypothetical protein.	0.630
sync_0591	sync_2059	sync_0591	sync_2059	Membrane protein, putative.	Hypothetical protein; Identified by Glimmer2; putative; Belongs to the OprB family.	0.638
sync_0642	sync_0823	sync_0642	sync_0823	Conserved hypothetical protein.	Potassium channel; Identified by match to protein family HMM PF07885.	0.580
sync_0642	sync_1356	sync_0642	sync_1356	Conserved hypothetical protein.	Hypothetical protein.	0.598
sync_0642	sync_2059	sync_0642	sync_2059	Conserved hypothetical protein.	Hypothetical protein; Identified by Glimmer2; putative; Belongs to the OprB family.	0.517
sync_0813	sync_0823	sync_0813	sync_0823	Conserved hypothetical protein.	Potassium channel; Identified by match to protein family HMM PF07885.	0.555
sync_0813	sync_1356	sync_0813	sync_1356	Conserved hypothetical protein.	Hypothetical protein.	0.664
sync_0822	sync_0823	sync_0822	sync_0823	Alcohol dehydrogenase; Identified by match to protein family HMM PF00248.	Potassium channel; Identified by match to protein family HMM PF07885.	0.773
sync_0823	gyrB	sync_0823	sync_0092	Potassium channel; Identified by match to protein family HMM PF07885.	DNA gyrase, B subunit; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.	0.523
sync_0823	sync_0591	sync_0823	sync_0591	Potassium channel; Identified by match to protein family HMM PF07885.	Membrane protein, putative.	0.587
sync_0823	sync_0642	sync_0823	sync_0642	Potassium channel; Identified by match to protein family HMM PF07885.	Conserved hypothetical protein.	0.580
sync_0823	sync_0813	sync_0823	sync_0813	Potassium channel; Identified by match to protein family HMM PF07885.	Conserved hypothetical protein.	0.555
sync_0823	sync_0822	sync_0823	sync_0822	Potassium channel; Identified by match to protein family HMM PF07885.	Alcohol dehydrogenase; Identified by match to protein family HMM PF00248.	0.773
sync_0823	sync_1356	sync_0823	sync_1356	Potassium channel; Identified by match to protein family HMM PF07885.	Hypothetical protein.	0.538
sync_0823	sync_1907	sync_0823	sync_1907	Potassium channel; Identified by match to protein family HMM PF07885.	Conserved hypothetical protein.	0.589
sync_0823	sync_2059	sync_0823	sync_2059	Potassium channel; Identified by match to protein family HMM PF07885.	Hypothetical protein; Identified by Glimmer2; putative; Belongs to the OprB family.	0.601
sync_0823	sync_2479	sync_0823	sync_2479	Potassium channel; Identified by match to protein family HMM PF07885.	Conserved hypothetical protein.	0.590
sync_0823	sync_2803	sync_0823	sync_2803	Potassium channel; Identified by match to protein family HMM PF07885.	Conserved hypothetical protein.	0.527