(10 nodes) RNA polymerase, and Sigma-70 factor, region 1.2 network (Streptomyces sp. CB01580)

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:
	whiB-3	DNA-binding protein; Acts as a transcriptional regulator. Probably redox- responsive. The apo- but not holo-form probably binds DNA. (122 aa)
	OKJ36383.1	MerR family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology. (275 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. (1161 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. (1304 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. (340 aa)
	OKJ33596.1	RNA polymerase subunit sigma; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. (332 aa)
	rpoZ	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. (90 aa)
	OKJ31342.1	CarD family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology. (160 aa)
	sigA	RNA polymerase subunit sigma; 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. (515 aa)
	rbpA-2	Hypothetical protein; Binds to RNA polymerase (RNAP), stimulating transcription from principal, but not alternative sigma factor promoters. (124 aa)

Your Current Organism:

Streptomyces sp. CB01580

NCBI taxonomy Id: 1703933
Other names: S. sp. CB01580

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
OKJ31342.1	OKJ33596.1	AMK22_26505	AMK22_19890	CarD family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	RNA polymerase subunit sigma; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	0.934
OKJ31342.1	rbpA-2	AMK22_26505	AMK22_29440	CarD family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Binds to RNA polymerase (RNAP), stimulating transcription from principal, but not alternative sigma factor promoters.	0.989
OKJ31342.1	rpoA	AMK22_26505	AMK22_19205	CarD family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA-directed RNA polymerase subunit alpha; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.986
OKJ31342.1	rpoB	AMK22_26505	AMK22_19000	CarD family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	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
OKJ31342.1	rpoC	AMK22_26505	AMK22_19005	CarD family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.990
OKJ31342.1	rpoZ	AMK22_26505	AMK22_21400	CarD family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	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.	0.982
OKJ31342.1	sigA	AMK22_26505	AMK22_28280	CarD family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	RNA polymerase subunit sigma; 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.	0.934
OKJ31342.1	whiB-3	AMK22_26505	AMK22_04050	CarD family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA-binding protein; Acts as a transcriptional regulator. Probably redox- responsive. The apo- but not holo-form probably binds DNA.	0.918
OKJ33596.1	OKJ31342.1	AMK22_19890	AMK22_26505	RNA polymerase subunit sigma; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	CarD family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.934
OKJ33596.1	OKJ36383.1	AMK22_19890	AMK22_15205	RNA polymerase subunit sigma; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	MerR family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.937
OKJ33596.1	rbpA-2	AMK22_19890	AMK22_29440	RNA polymerase subunit sigma; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	Hypothetical protein; Binds to RNA polymerase (RNAP), stimulating transcription from principal, but not alternative sigma factor promoters.	0.968
OKJ33596.1	rpoA	AMK22_19890	AMK22_19205	RNA polymerase subunit sigma; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	DNA-directed RNA polymerase subunit alpha; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.984
OKJ33596.1	rpoB	AMK22_19890	AMK22_19000	RNA polymerase subunit sigma; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.988
OKJ33596.1	rpoC	AMK22_19890	AMK22_19005	RNA polymerase subunit sigma; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.982
OKJ33596.1	rpoZ	AMK22_19890	AMK22_21400	RNA polymerase subunit sigma; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	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.	0.976
OKJ33596.1	whiB-3	AMK22_19890	AMK22_04050	RNA polymerase subunit sigma; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	DNA-binding protein; Acts as a transcriptional regulator. Probably redox- responsive. The apo- but not holo-form probably binds DNA.	0.898
OKJ36383.1	OKJ33596.1	AMK22_15205	AMK22_19890	MerR family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	RNA polymerase subunit sigma; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.	0.937
OKJ36383.1	rpoA	AMK22_15205	AMK22_19205	MerR family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA-directed RNA polymerase subunit alpha; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.968
OKJ36383.1	rpoB	AMK22_15205	AMK22_19000	MerR family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.981
OKJ36383.1	rpoC	AMK22_15205	AMK22_19005	MerR family transcriptional regulator; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.968