12 items (Synergistes jonesii) - STRING interaction network

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:
	sigA	RNA polymerase sigma factor RpoD; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the primary sigma factor during exponential growth. (387 aa)
	EH55_00355	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the sigma-70 factor family. ECF subfamily. (164 aa)
	rpoA	DNA-directed RNA polymerase subunit alpha; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (356 aa)
	rpoC	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1688 aa)
	rpoB	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1223 aa)
	EH55_11335	Transcription attenuation protein MtrB; Derived by automated computational analysis using gene prediction method: Protein Homology. (77 aa)
	nusG	Antitermination protein NusG; Participates in transcription elongation, termination and antitermination. (183 aa)
	rho	Transcription termination factor Rho; Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA- dependent ATPase activity, and release of the mRNA from the DNA template. (623 aa)
	EH55_09485	DNA-directed RNA polymerase subunit omega; 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. (74 aa)
	nusA	Transcription elongation factor NusA; Participates in both transcription termination and antitermination. (390 aa)
	nusB	Hypothetical protein; 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. (174 aa)
	EH55_07550	Flagellar biosynthesis protein FliA; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the sigma-70 factor family. (200 aa)

Your Current Organism:

Synergistes jonesii

NCBI taxonomy Id: 2754
Other names: ATCC 49833, S. jonesii, strain 78-1

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 protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
EH55_00355	EH55_09485	EH55_00355	EH55_09485	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the sigma-70 factor family. ECF subfamily.	DNA-directed RNA polymerase subunit omega; 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.	0.940
EH55_00355	rpoA	EH55_00355	EH55_12520	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the sigma-70 factor family. ECF subfamily.	DNA-directed RNA polymerase subunit alpha; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.941
EH55_00355	rpoB	EH55_00355	EH55_12335	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the sigma-70 factor family. ECF subfamily.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.940
EH55_00355	rpoC	EH55_00355	EH55_12340	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the sigma-70 factor family. ECF subfamily.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.940
EH55_07550	EH55_09485	EH55_07550	EH55_09485	Flagellar biosynthesis protein FliA; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the sigma-70 factor family.	DNA-directed RNA polymerase subunit omega; 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.	0.807
EH55_07550	rpoA	EH55_07550	EH55_12520	Flagellar biosynthesis protein FliA; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the sigma-70 factor family.	DNA-directed RNA polymerase subunit alpha; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.941
EH55_07550	rpoB	EH55_07550	EH55_12335	Flagellar biosynthesis protein FliA; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the sigma-70 factor family.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.941
EH55_07550	rpoC	EH55_07550	EH55_12340	Flagellar biosynthesis protein FliA; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the sigma-70 factor family.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.943
EH55_09485	EH55_00355	EH55_09485	EH55_00355	DNA-directed RNA polymerase subunit omega; 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.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the sigma-70 factor family. ECF subfamily.	0.940
EH55_09485	EH55_07550	EH55_09485	EH55_07550	DNA-directed RNA polymerase subunit omega; 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.	Flagellar biosynthesis protein FliA; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the sigma-70 factor family.	0.807
EH55_09485	nusA	EH55_09485	EH55_08910	DNA-directed RNA polymerase subunit omega; 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 elongation factor NusA; Participates in both transcription termination and antitermination.	0.956
EH55_09485	nusB	EH55_09485	EH55_07660	DNA-directed RNA polymerase subunit omega; 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.	Hypothetical protein; 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.	0.906
EH55_09485	nusG	EH55_09485	EH55_10185	DNA-directed RNA polymerase subunit omega; 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.	Antitermination protein NusG; Participates in transcription elongation, termination and antitermination.	0.920
EH55_09485	rho	EH55_09485	EH55_09645	DNA-directed RNA polymerase subunit omega; 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 Rho; Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA- dependent ATPase activity, and release of the mRNA from the DNA template.	0.869
EH55_09485	rpoA	EH55_09485	EH55_12520	DNA-directed RNA polymerase subunit omega; 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.	DNA-directed RNA polymerase subunit alpha; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.999
EH55_09485	rpoB	EH55_09485	EH55_12335	DNA-directed RNA polymerase subunit omega; 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.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.999
EH55_09485	rpoC	EH55_09485	EH55_12340	DNA-directed RNA polymerase subunit omega; 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.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.999
EH55_09485	sigA	EH55_09485	EH55_02995	DNA-directed RNA polymerase subunit omega; 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.	RNA polymerase sigma factor RpoD; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the primary sigma factor during exponential growth.	0.945
nusA	EH55_09485	EH55_08910	EH55_09485	Transcription elongation factor NusA; Participates in both transcription termination and antitermination.	DNA-directed RNA polymerase subunit omega; 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.	0.956
nusA	nusB	EH55_08910	EH55_07660	Transcription elongation factor NusA; Participates in both transcription termination and antitermination.	Hypothetical protein; 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.	0.970