sync_1284 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_1284

Collagenase; Identified by match to protein family HMM PF01136. (855 aa)

Predicted Functional Partners:

sync_1283

0.783

typA

0.676

sync_1287

0.585

sync_1289

0.585

sync_1286

0.584

sync_1288

0.584

chlP

0.550

ccsA

0.524

sync_1595

0.442

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
ccsA	sync_1283	sync_1290	sync_1283	Cytochrome c assembly protein; Required during biogenesis of c-type cytochromes (cytochrome c6 and cytochrome f) at the step of heme attachment.	D-alanyl-D-alanine carboxypeptidase; Identified by match to protein family HMM PF02557.	0.485
ccsA	sync_1284	sync_1290	sync_1284	Cytochrome c assembly protein; Required during biogenesis of c-type cytochromes (cytochrome c6 and cytochrome f) at the step of heme attachment.	Collagenase; Identified by match to protein family HMM PF01136.	0.524
ccsA	sync_1286	sync_1290	sync_1286	Cytochrome c assembly protein; Required during biogenesis of c-type cytochromes (cytochrome c6 and cytochrome f) at the step of heme attachment.	Conserved hypothetical protein; Identified by match to protein family HMM PF03745.	0.624
ccsA	sync_1287	sync_1290	sync_1287	Cytochrome c assembly protein; Required during biogenesis of c-type cytochromes (cytochrome c6 and cytochrome f) at the step of heme attachment.	Conserved hypothetical protein.	0.616
ccsA	sync_1288	sync_1290	sync_1288	Cytochrome c assembly protein; Required during biogenesis of c-type cytochromes (cytochrome c6 and cytochrome f) at the step of heme attachment.	Possible ABC transporter, ATP binding component; Identified by match to protein family HMM PF00005.	0.644
ccsA	sync_1289	sync_1290	sync_1289	Cytochrome c assembly protein; Required during biogenesis of c-type cytochromes (cytochrome c6 and cytochrome f) at the step of heme attachment.	Putative membrane protein, YjgP/YjgQ family protein; Identified by match to protein family HMM PF03739.	0.648
ccsA	typA	sync_1290	sync_1285	Cytochrome c assembly protein; Required during biogenesis of c-type cytochromes (cytochrome c6 and cytochrome f) at the step of heme attachment.	GTP-binding protein TypA; Identified by match to protein family HMM PF00009; match to protein family HMM PF00679; match to protein family HMM PF03144; match to protein family HMM TIGR00231; match to protein family HMM TIGR01394.	0.619
chlP	sync_1283	sync_1282	sync_1283	Geranylgeranyl reductase; Identified by match to protein family HMM TIGR02023; match to protein family HMM TIGR02028.	D-alanyl-D-alanine carboxypeptidase; Identified by match to protein family HMM PF02557.	0.598
chlP	sync_1284	sync_1282	sync_1284	Geranylgeranyl reductase; Identified by match to protein family HMM TIGR02023; match to protein family HMM TIGR02028.	Collagenase; Identified by match to protein family HMM PF01136.	0.550
chlP	sync_1286	sync_1282	sync_1286	Geranylgeranyl reductase; Identified by match to protein family HMM TIGR02023; match to protein family HMM TIGR02028.	Conserved hypothetical protein; Identified by match to protein family HMM PF03745.	0.456
chlP	sync_1287	sync_1282	sync_1287	Geranylgeranyl reductase; Identified by match to protein family HMM TIGR02023; match to protein family HMM TIGR02028.	Conserved hypothetical protein.	0.426
chlP	sync_1288	sync_1282	sync_1288	Geranylgeranyl reductase; Identified by match to protein family HMM TIGR02023; match to protein family HMM TIGR02028.	Possible ABC transporter, ATP binding component; Identified by match to protein family HMM PF00005.	0.431
chlP	sync_1289	sync_1282	sync_1289	Geranylgeranyl reductase; Identified by match to protein family HMM TIGR02023; match to protein family HMM TIGR02028.	Putative membrane protein, YjgP/YjgQ family protein; Identified by match to protein family HMM PF03739.	0.426
chlP	typA	sync_1282	sync_1285	Geranylgeranyl reductase; Identified by match to protein family HMM TIGR02023; match to protein family HMM TIGR02028.	GTP-binding protein TypA; Identified by match to protein family HMM PF00009; match to protein family HMM PF00679; match to protein family HMM PF03144; match to protein family HMM TIGR00231; match to protein family HMM TIGR01394.	0.465
sync_1283	ccsA	sync_1283	sync_1290	D-alanyl-D-alanine carboxypeptidase; Identified by match to protein family HMM PF02557.	Cytochrome c assembly protein; Required during biogenesis of c-type cytochromes (cytochrome c6 and cytochrome f) at the step of heme attachment.	0.485
sync_1283	chlP	sync_1283	sync_1282	D-alanyl-D-alanine carboxypeptidase; Identified by match to protein family HMM PF02557.	Geranylgeranyl reductase; Identified by match to protein family HMM TIGR02023; match to protein family HMM TIGR02028.	0.598
sync_1283	sync_1284	sync_1283	sync_1284	D-alanyl-D-alanine carboxypeptidase; Identified by match to protein family HMM PF02557.	Collagenase; Identified by match to protein family HMM PF01136.	0.783
sync_1283	sync_1286	sync_1283	sync_1286	D-alanyl-D-alanine carboxypeptidase; Identified by match to protein family HMM PF02557.	Conserved hypothetical protein; Identified by match to protein family HMM PF03745.	0.613
sync_1283	sync_1287	sync_1283	sync_1287	D-alanyl-D-alanine carboxypeptidase; Identified by match to protein family HMM PF02557.	Conserved hypothetical protein.	0.634
sync_1283	sync_1288	sync_1283	sync_1288	D-alanyl-D-alanine carboxypeptidase; Identified by match to protein family HMM PF02557.	Possible ABC transporter, ATP binding component; Identified by match to protein family HMM PF00005.	0.608