(8 nodes) (2023) Epistatic interactions between the high pathogenicity island and other iron uptake systems shape Escherichia coli extra-intestinal virulence. network (Shigella dysenteriae)

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:
	recA	DNA-dependent ATPase, DNA- and ATP-dependent coprotease; Can catalyze the hydrolysis of ATP in the presence of single- stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. It interacts with LexA causing its activation and leading to its autocatalytic cleavage; Belongs to the RecA family. (353 aa)
	iroE	Putative exported protein; Code: R; COG: COG2819. (318 aa)
	iroD	Putative ferric enterochelin esterase; Code: P; COG: COG2382. (409 aa)
	iroC	Putative ABC transporter protein; Code: V; COG: COG1132. (1219 aa)
	sitD	Iron transport protein, inner membrane component; Code: P; COG: COG1108. (285 aa)
	sitC	Iron transport protein, inner membrane component; Code: P; COG: COG1108. (285 aa)
	sitB	Iron transport protein, ATP-binding component; Code: P; COG: COG1121. (275 aa)
	sitA	Iron transport protein, periplasmic-binding protein; Code: P; COG: COG0803; Belongs to the bacterial solute-binding protein 9 family. (304 aa)

Your Current Organism:

Shigella dysenteriae

NCBI taxonomy Id: 300267
Other names: S. dysenteriae Sd197, Shigella dysenteriae Sd197, Shigella dysenteriae str. Sd197, Shigella dysenteriae strain Sd197

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
iroC	iroD	SDY_1025	SDY_1024	Putative ABC transporter protein; Code: V; COG: COG1132.	Putative ferric enterochelin esterase; Code: P; COG: COG2382.	0.919
iroC	iroE	SDY_1025	SDY_1023	Putative ABC transporter protein; Code: V; COG: COG1132.	Putative exported protein; Code: R; COG: COG2819.	0.924
iroD	iroC	SDY_1024	SDY_1025	Putative ferric enterochelin esterase; Code: P; COG: COG2382.	Putative ABC transporter protein; Code: V; COG: COG1132.	0.919
iroD	iroE	SDY_1024	SDY_1023	Putative ferric enterochelin esterase; Code: P; COG: COG2382.	Putative exported protein; Code: R; COG: COG2819.	0.926
iroD	sitB	SDY_1024	SDY_1456	Putative ferric enterochelin esterase; Code: P; COG: COG2382.	Iron transport protein, ATP-binding component; Code: P; COG: COG1121.	0.430
iroD	sitC	SDY_1024	SDY_1455	Putative ferric enterochelin esterase; Code: P; COG: COG2382.	Iron transport protein, inner membrane component; Code: P; COG: COG1108.	0.420
iroD	sitD	SDY_1024	SDY_1454	Putative ferric enterochelin esterase; Code: P; COG: COG2382.	Iron transport protein, inner membrane component; Code: P; COG: COG1108.	0.412
iroE	iroC	SDY_1023	SDY_1025	Putative exported protein; Code: R; COG: COG2819.	Putative ABC transporter protein; Code: V; COG: COG1132.	0.924
iroE	iroD	SDY_1023	SDY_1024	Putative exported protein; Code: R; COG: COG2819.	Putative ferric enterochelin esterase; Code: P; COG: COG2382.	0.926
iroE	sitB	SDY_1023	SDY_1456	Putative exported protein; Code: R; COG: COG2819.	Iron transport protein, ATP-binding component; Code: P; COG: COG1121.	0.495
sitA	sitB	SDY_1457	SDY_1456	Iron transport protein, periplasmic-binding protein; Code: P; COG: COG0803; Belongs to the bacterial solute-binding protein 9 family.	Iron transport protein, ATP-binding component; Code: P; COG: COG1121.	0.999
sitA	sitC	SDY_1457	SDY_1455	Iron transport protein, periplasmic-binding protein; Code: P; COG: COG0803; Belongs to the bacterial solute-binding protein 9 family.	Iron transport protein, inner membrane component; Code: P; COG: COG1108.	0.999
sitA	sitD	SDY_1457	SDY_1454	Iron transport protein, periplasmic-binding protein; Code: P; COG: COG0803; Belongs to the bacterial solute-binding protein 9 family.	Iron transport protein, inner membrane component; Code: P; COG: COG1108.	0.999
sitB	iroD	SDY_1456	SDY_1024	Iron transport protein, ATP-binding component; Code: P; COG: COG1121.	Putative ferric enterochelin esterase; Code: P; COG: COG2382.	0.430
sitB	iroE	SDY_1456	SDY_1023	Iron transport protein, ATP-binding component; Code: P; COG: COG1121.	Putative exported protein; Code: R; COG: COG2819.	0.495
sitB	sitA	SDY_1456	SDY_1457	Iron transport protein, ATP-binding component; Code: P; COG: COG1121.	Iron transport protein, periplasmic-binding protein; Code: P; COG: COG0803; Belongs to the bacterial solute-binding protein 9 family.	0.999
sitB	sitC	SDY_1456	SDY_1455	Iron transport protein, ATP-binding component; Code: P; COG: COG1121.	Iron transport protein, inner membrane component; Code: P; COG: COG1108.	0.999
sitB	sitD	SDY_1456	SDY_1454	Iron transport protein, ATP-binding component; Code: P; COG: COG1121.	Iron transport protein, inner membrane component; Code: P; COG: COG1108.	0.999
sitC	iroD	SDY_1455	SDY_1024	Iron transport protein, inner membrane component; Code: P; COG: COG1108.	Putative ferric enterochelin esterase; Code: P; COG: COG2382.	0.420
sitC	sitA	SDY_1455	SDY_1457	Iron transport protein, inner membrane component; Code: P; COG: COG1108.	Iron transport protein, periplasmic-binding protein; Code: P; COG: COG0803; Belongs to the bacterial solute-binding protein 9 family.	0.999