sync_0667 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.

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

sync_0667

Possible pilin; Identified by match to protein family HMM PF07963; match to protein family HMM TIGR02532. (184 aa)

Predicted Functional Partners:

pilC

0.975

sync_0666

0.965

pilB

0.962

sync_0659

0.926

gspO

0.869

pilT

0.688

sync_2158

0.630

sync_0668

0.539

sync_2206

0.503

sync_2717

0.495

Your Current Organism:

Synechococcus sp. CC9311

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

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
gspO	pilB	sync_1709	sync_0021	Prepilin peptidase; Identified by similarity to SP:P31712; match to protein family HMM PF01478; match to protein family HMM PF06750.	Type IV pilus assembly protein PilB; Identified by match to protein family HMM PF00437.	0.898
gspO	pilC	sync_1709	sync_0019	Prepilin peptidase; Identified by similarity to SP:P31712; match to protein family HMM PF01478; match to protein family HMM PF06750.	Type IV pilus assembly protein PilC; Identified by match to protein family HMM PF00482.	0.933
gspO	pilT	sync_1709	sync_0020	Prepilin peptidase; Identified by similarity to SP:P31712; match to protein family HMM PF01478; match to protein family HMM PF06750.	Twitching motility protein; Identified by similarity to SP:P24559; match to protein family HMM PF00437; match to protein family HMM TIGR01420.	0.871
gspO	sync_0659	sync_1709	sync_0659	Prepilin peptidase; Identified by similarity to SP:P31712; match to protein family HMM PF01478; match to protein family HMM PF06750.	Possible pilin; Identified by match to protein family HMM TIGR02532.	0.724
gspO	sync_0667	sync_1709	sync_0667	Prepilin peptidase; Identified by similarity to SP:P31712; match to protein family HMM PF01478; match to protein family HMM PF06750.	Possible pilin; Identified by match to protein family HMM PF07963; match to protein family HMM TIGR02532.	0.869
gspO	sync_2158	sync_1709	sync_2158	Prepilin peptidase; Identified by similarity to SP:P31712; match to protein family HMM PF01478; match to protein family HMM PF06750.	Twitching mobility protein PilT; Identified by match to protein family HMM PF00437; match to protein family HMM TIGR01420.	0.815
gspO	sync_2206	sync_1709	sync_2206	Prepilin peptidase; Identified by similarity to SP:P31712; match to protein family HMM PF01478; match to protein family HMM PF06750.	Conserved hypothetical protein.	0.759
gspO	sync_2717	sync_1709	sync_2717	Prepilin peptidase; Identified by similarity to SP:P31712; match to protein family HMM PF01478; match to protein family HMM PF06750.	Possible general (type II) secretion pathway protein D precursor; Identified by match to protein family HMM PF00263; match to protein family HMM PF07660; Belongs to the bacterial secretin family.	0.496
pilB	gspO	sync_0021	sync_1709	Type IV pilus assembly protein PilB; Identified by match to protein family HMM PF00437.	Prepilin peptidase; Identified by similarity to SP:P31712; match to protein family HMM PF01478; match to protein family HMM PF06750.	0.898
pilB	pilC	sync_0021	sync_0019	Type IV pilus assembly protein PilB; Identified by match to protein family HMM PF00437.	Type IV pilus assembly protein PilC; Identified by match to protein family HMM PF00482.	0.998
pilB	pilT	sync_0021	sync_0020	Type IV pilus assembly protein PilB; Identified by match to protein family HMM PF00437.	Twitching motility protein; Identified by similarity to SP:P24559; match to protein family HMM PF00437; match to protein family HMM TIGR01420.	0.855
pilB	sync_0659	sync_0021	sync_0659	Type IV pilus assembly protein PilB; Identified by match to protein family HMM PF00437.	Possible pilin; Identified by match to protein family HMM TIGR02532.	0.557
pilB	sync_0667	sync_0021	sync_0667	Type IV pilus assembly protein PilB; Identified by match to protein family HMM PF00437.	Possible pilin; Identified by match to protein family HMM PF07963; match to protein family HMM TIGR02532.	0.962
pilB	sync_2158	sync_0021	sync_2158	Type IV pilus assembly protein PilB; Identified by match to protein family HMM PF00437.	Twitching mobility protein PilT; Identified by match to protein family HMM PF00437; match to protein family HMM TIGR01420.	0.559
pilB	sync_2206	sync_0021	sync_2206	Type IV pilus assembly protein PilB; Identified by match to protein family HMM PF00437.	Conserved hypothetical protein.	0.621
pilB	sync_2717	sync_0021	sync_2717	Type IV pilus assembly protein PilB; Identified by match to protein family HMM PF00437.	Possible general (type II) secretion pathway protein D precursor; Identified by match to protein family HMM PF00263; match to protein family HMM PF07660; Belongs to the bacterial secretin family.	0.538
pilC	gspO	sync_0019	sync_1709	Type IV pilus assembly protein PilC; Identified by match to protein family HMM PF00482.	Prepilin peptidase; Identified by similarity to SP:P31712; match to protein family HMM PF01478; match to protein family HMM PF06750.	0.933
pilC	pilB	sync_0019	sync_0021	Type IV pilus assembly protein PilC; Identified by match to protein family HMM PF00482.	Type IV pilus assembly protein PilB; Identified by match to protein family HMM PF00437.	0.998
pilC	pilT	sync_0019	sync_0020	Type IV pilus assembly protein PilC; Identified by match to protein family HMM PF00482.	Twitching motility protein; Identified by similarity to SP:P24559; match to protein family HMM PF00437; match to protein family HMM TIGR01420.	0.977
pilC	sync_0659	sync_0019	sync_0659	Type IV pilus assembly protein PilC; Identified by match to protein family HMM PF00482.	Possible pilin; Identified by match to protein family HMM TIGR02532.	0.683