(6 nodes) Mixed, incl. Amino-acid betaine transport, and ABC-type glycine betaine transport system, substrate-binding domain 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:
	yehZ	Putative transport system permease protein; Code: M; COG: COG1732. (305 aa)
	yehW	Putative transport system permease protein; Code: E; COG: COG1174. (243 aa)
	insB-84	IS1 ORF2; Code: L; COG: COG1662. (125 aa)
	insA-88	IS1 ORF1; Code: L; COG: COG3677. (91 aa)
	proV	ATP-binding component of transport system for glycine, betaine and proline; Code: E; COG: COG4175. (341 aa)
	proW	High-affinity transport system for glycine betaine and proline; Code: E; COG: COG4176. (354 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
insA-88	insB-84	SDY_2871	SDY_2870	IS1 ORF1; Code: L; COG: COG3677.	IS1 ORF2; Code: L; COG: COG1662.	0.634
insA-88	proV	SDY_2871	SDY_2872	IS1 ORF1; Code: L; COG: COG3677.	ATP-binding component of transport system for glycine, betaine and proline; Code: E; COG: COG4175.	0.509
insA-88	proW	SDY_2871	SDY_2873	IS1 ORF1; Code: L; COG: COG3677.	High-affinity transport system for glycine betaine and proline; Code: E; COG: COG4176.	0.509
insB-84	insA-88	SDY_2870	SDY_2871	IS1 ORF2; Code: L; COG: COG1662.	IS1 ORF1; Code: L; COG: COG3677.	0.634
insB-84	proV	SDY_2870	SDY_2872	IS1 ORF2; Code: L; COG: COG1662.	ATP-binding component of transport system for glycine, betaine and proline; Code: E; COG: COG4175.	0.427
insB-84	proW	SDY_2870	SDY_2873	IS1 ORF2; Code: L; COG: COG1662.	High-affinity transport system for glycine betaine and proline; Code: E; COG: COG4176.	0.427
proV	insA-88	SDY_2872	SDY_2871	ATP-binding component of transport system for glycine, betaine and proline; Code: E; COG: COG4175.	IS1 ORF1; Code: L; COG: COG3677.	0.509
proV	insB-84	SDY_2872	SDY_2870	ATP-binding component of transport system for glycine, betaine and proline; Code: E; COG: COG4175.	IS1 ORF2; Code: L; COG: COG1662.	0.427
proV	proW	SDY_2872	SDY_2873	ATP-binding component of transport system for glycine, betaine and proline; Code: E; COG: COG4175.	High-affinity transport system for glycine betaine and proline; Code: E; COG: COG4176.	0.999
proV	yehW	SDY_2872	SDY_2160	ATP-binding component of transport system for glycine, betaine and proline; Code: E; COG: COG4175.	Putative transport system permease protein; Code: E; COG: COG1174.	0.760
proW	insA-88	SDY_2873	SDY_2871	High-affinity transport system for glycine betaine and proline; Code: E; COG: COG4176.	IS1 ORF1; Code: L; COG: COG3677.	0.509
proW	insB-84	SDY_2873	SDY_2870	High-affinity transport system for glycine betaine and proline; Code: E; COG: COG4176.	IS1 ORF2; Code: L; COG: COG1662.	0.427
proW	proV	SDY_2873	SDY_2872	High-affinity transport system for glycine betaine and proline; Code: E; COG: COG4176.	ATP-binding component of transport system for glycine, betaine and proline; Code: E; COG: COG4175.	0.999
proW	yehZ	SDY_2873	SDY_2157	High-affinity transport system for glycine betaine and proline; Code: E; COG: COG4176.	Putative transport system permease protein; Code: M; COG: COG1732.	0.945
yehW	proV	SDY_2160	SDY_2872	Putative transport system permease protein; Code: E; COG: COG1174.	ATP-binding component of transport system for glycine, betaine and proline; Code: E; COG: COG4175.	0.760
yehW	yehZ	SDY_2160	SDY_2157	Putative transport system permease protein; Code: E; COG: COG1174.	Putative transport system permease protein; Code: M; COG: COG1732.	0.998
yehZ	proW	SDY_2157	SDY_2873	Putative transport system permease protein; Code: M; COG: COG1732.	High-affinity transport system for glycine betaine and proline; Code: E; COG: COG4176.	0.945
yehZ	yehW	SDY_2157	SDY_2160	Putative transport system permease protein; Code: M; COG: COG1732.	Putative transport system permease protein; Code: E; COG: COG1174.	0.998