sync_0060 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_0060

SpoIID/LytB domain protein; Identified by match to protein family HMM TIGR02669. (581 aa)

Predicted Functional Partners:

sync_0061

0.800

rpmI

0.603

rplT

0.502

sync_0323

0.460

sync_1406

0.445

sync_0057

0.426

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
rplT	rpmI	sync_0058	sync_0059	Ribosomal protein L20; Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit.	Ribosomal protein L35; Identified by match to protein family HMM PF01632; match to protein family HMM TIGR00001; Belongs to the bacterial ribosomal protein bL35 family.	0.998
rplT	sync_0057	sync_0058	sync_0057	Ribosomal protein L20; Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit.	Putative photosystem I assembly related protein Ycf37; Identified by match to protein family HMM PF00515; match to protein family HMM PF07719.	0.720
rplT	sync_0060	sync_0058	sync_0060	Ribosomal protein L20; Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit.	SpoIID/LytB domain protein; Identified by match to protein family HMM TIGR02669.	0.502
rplT	sync_0061	sync_0058	sync_0061	Ribosomal protein L20; Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit.	Glycosyl transferase, group 2 family protein; Identified by match to protein family HMM PF00535.	0.502
rpmI	rplT	sync_0059	sync_0058	Ribosomal protein L35; Identified by match to protein family HMM PF01632; match to protein family HMM TIGR00001; Belongs to the bacterial ribosomal protein bL35 family.	Ribosomal protein L20; Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit.	0.998
rpmI	sync_0057	sync_0059	sync_0057	Ribosomal protein L35; Identified by match to protein family HMM PF01632; match to protein family HMM TIGR00001; Belongs to the bacterial ribosomal protein bL35 family.	Putative photosystem I assembly related protein Ycf37; Identified by match to protein family HMM PF00515; match to protein family HMM PF07719.	0.576
rpmI	sync_0060	sync_0059	sync_0060	Ribosomal protein L35; Identified by match to protein family HMM PF01632; match to protein family HMM TIGR00001; Belongs to the bacterial ribosomal protein bL35 family.	SpoIID/LytB domain protein; Identified by match to protein family HMM TIGR02669.	0.603
rpmI	sync_0061	sync_0059	sync_0061	Ribosomal protein L35; Identified by match to protein family HMM PF01632; match to protein family HMM TIGR00001; Belongs to the bacterial ribosomal protein bL35 family.	Glycosyl transferase, group 2 family protein; Identified by match to protein family HMM PF00535.	0.622
sync_0057	rplT	sync_0057	sync_0058	Putative photosystem I assembly related protein Ycf37; Identified by match to protein family HMM PF00515; match to protein family HMM PF07719.	Ribosomal protein L20; Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit.	0.720
sync_0057	rpmI	sync_0057	sync_0059	Putative photosystem I assembly related protein Ycf37; Identified by match to protein family HMM PF00515; match to protein family HMM PF07719.	Ribosomal protein L35; Identified by match to protein family HMM PF01632; match to protein family HMM TIGR00001; Belongs to the bacterial ribosomal protein bL35 family.	0.576
sync_0057	sync_0060	sync_0057	sync_0060	Putative photosystem I assembly related protein Ycf37; Identified by match to protein family HMM PF00515; match to protein family HMM PF07719.	SpoIID/LytB domain protein; Identified by match to protein family HMM TIGR02669.	0.426
sync_0057	sync_0061	sync_0057	sync_0061	Putative photosystem I assembly related protein Ycf37; Identified by match to protein family HMM PF00515; match to protein family HMM PF07719.	Glycosyl transferase, group 2 family protein; Identified by match to protein family HMM PF00535.	0.507
sync_0060	rplT	sync_0060	sync_0058	SpoIID/LytB domain protein; Identified by match to protein family HMM TIGR02669.	Ribosomal protein L20; Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit.	0.502
sync_0060	rpmI	sync_0060	sync_0059	SpoIID/LytB domain protein; Identified by match to protein family HMM TIGR02669.	Ribosomal protein L35; Identified by match to protein family HMM PF01632; match to protein family HMM TIGR00001; Belongs to the bacterial ribosomal protein bL35 family.	0.603
sync_0060	sync_0057	sync_0060	sync_0057	SpoIID/LytB domain protein; Identified by match to protein family HMM TIGR02669.	Putative photosystem I assembly related protein Ycf37; Identified by match to protein family HMM PF00515; match to protein family HMM PF07719.	0.426
sync_0060	sync_0061	sync_0060	sync_0061	SpoIID/LytB domain protein; Identified by match to protein family HMM TIGR02669.	Glycosyl transferase, group 2 family protein; Identified by match to protein family HMM PF00535.	0.800
sync_0060	sync_0323	sync_0060	sync_0323	SpoIID/LytB domain protein; Identified by match to protein family HMM TIGR02669.	Identified by match to protein family HMM PF01464.	0.460
sync_0060	sync_1406	sync_0060	sync_1406	SpoIID/LytB domain protein; Identified by match to protein family HMM TIGR02669.	Conserved hypothetical protein.	0.445
sync_0061	rplT	sync_0061	sync_0058	Glycosyl transferase, group 2 family protein; Identified by match to protein family HMM PF00535.	Ribosomal protein L20; Binds directly to 23S ribosomal RNA and is necessary for the in vitro assembly process of the 50S ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit.	0.502
sync_0061	rpmI	sync_0061	sync_0059	Glycosyl transferase, group 2 family protein; Identified by match to protein family HMM PF00535.	Ribosomal protein L35; Identified by match to protein family HMM PF01632; match to protein family HMM TIGR00001; Belongs to the bacterial ribosomal protein bL35 family.	0.622