sync_2540 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_2540

Identified by match to protein family HMM PF00459. (254 aa)

Predicted Functional Partners:

suhB,ssyA

0.929

sync_2087

0.773

sync_2541

0.703

sync_2542

0.702

rpoZ

0.587

nusA

0.563

nusG

0.553

sync_0010

0.535

rpoB

0.514

uppP

0.510

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
nusA	nusG	sync_2371	sync_2728	Transcription termination factor NusA; Participates in both transcription termination and antitermination.	Transcription termination/antitermination factor NusG; Participates in transcription elongation, termination and antitermination.	0.976
nusA	rpoB	sync_2371	sync_2358	Transcription termination factor NusA; Participates in both transcription termination and antitermination.	DNA-directed RNA polymerase, beta subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.984
nusA	rpoZ	sync_2371	sync_2269	Transcription termination factor NusA; Participates in both transcription termination and antitermination.	Putative DNA-directed RNA polymerase, omega subunit; Promotes RNA polymerase assembly. Latches the N- and C- terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits.	0.757
nusA	suhB,ssyA	sync_2371	sync_1395	Transcription termination factor NusA; Participates in both transcription termination and antitermination.	Inositol-1-monophosphatase; Identified by match to protein family HMM PF00459; Belongs to the inositol monophosphatase superfamily.	0.563
nusA	sync_0010	sync_2371	sync_0010	Transcription termination factor NusA; Participates in both transcription termination and antitermination.	Putative transcription antitermination factor NusB; Involved in transcription antitermination. Required for transcription of ribosomal RNA (rRNA) genes. Binds specifically to the boxA antiterminator sequence of the ribosomal RNA (rrn) operons.	0.903
nusA	sync_2540	sync_2371	sync_2540	Transcription termination factor NusA; Participates in both transcription termination and antitermination.	Identified by match to protein family HMM PF00459.	0.563
nusG	nusA	sync_2728	sync_2371	Transcription termination/antitermination factor NusG; Participates in transcription elongation, termination and antitermination.	Transcription termination factor NusA; Participates in both transcription termination and antitermination.	0.976
nusG	rpoB	sync_2728	sync_2358	Transcription termination/antitermination factor NusG; Participates in transcription elongation, termination and antitermination.	DNA-directed RNA polymerase, beta subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.986
nusG	rpoZ	sync_2728	sync_2269	Transcription termination/antitermination factor NusG; Participates in transcription elongation, termination and antitermination.	Putative DNA-directed RNA polymerase, omega subunit; Promotes RNA polymerase assembly. Latches the N- and C- terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits.	0.920
nusG	suhB,ssyA	sync_2728	sync_1395	Transcription termination/antitermination factor NusG; Participates in transcription elongation, termination and antitermination.	Inositol-1-monophosphatase; Identified by match to protein family HMM PF00459; Belongs to the inositol monophosphatase superfamily.	0.553
nusG	sync_0010	sync_2728	sync_0010	Transcription termination/antitermination factor NusG; Participates in transcription elongation, termination and antitermination.	Putative transcription antitermination factor NusB; Involved in transcription antitermination. Required for transcription of ribosomal RNA (rRNA) genes. Binds specifically to the boxA antiterminator sequence of the ribosomal RNA (rrn) operons.	0.828
nusG	sync_2540	sync_2728	sync_2540	Transcription termination/antitermination factor NusG; Participates in transcription elongation, termination and antitermination.	Identified by match to protein family HMM PF00459.	0.553
rpoB	nusA	sync_2358	sync_2371	DNA-directed RNA polymerase, beta subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	Transcription termination factor NusA; Participates in both transcription termination and antitermination.	0.984
rpoB	nusG	sync_2358	sync_2728	DNA-directed RNA polymerase, beta subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	Transcription termination/antitermination factor NusG; Participates in transcription elongation, termination and antitermination.	0.986
rpoB	rpoZ	sync_2358	sync_2269	DNA-directed RNA polymerase, beta subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	Putative DNA-directed RNA polymerase, omega subunit; Promotes RNA polymerase assembly. Latches the N- and C- terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits.	0.994
rpoB	suhB,ssyA	sync_2358	sync_1395	DNA-directed RNA polymerase, beta subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	Inositol-1-monophosphatase; Identified by match to protein family HMM PF00459; Belongs to the inositol monophosphatase superfamily.	0.514
rpoB	sync_0010	sync_2358	sync_0010	DNA-directed RNA polymerase, beta subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	Putative transcription antitermination factor NusB; Involved in transcription antitermination. Required for transcription of ribosomal RNA (rRNA) genes. Binds specifically to the boxA antiterminator sequence of the ribosomal RNA (rrn) operons.	0.629
rpoB	sync_2540	sync_2358	sync_2540	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 PF00459.	0.514
rpoZ	nusA	sync_2269	sync_2371	Putative DNA-directed RNA polymerase, omega subunit; Promotes RNA polymerase assembly. Latches the N- and C- terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits.	Transcription termination factor NusA; Participates in both transcription termination and antitermination.	0.757
rpoZ	nusG	sync_2269	sync_2728	Putative DNA-directed RNA polymerase, omega subunit; Promotes RNA polymerase assembly. Latches the N- and C- terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits.	Transcription termination/antitermination factor NusG; Participates in transcription elongation, termination and antitermination.	0.920