cspB protein (Listeria innocua) - 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:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

cspB

Similar to major cold-shock protein. (66 aa)

Predicted Functional Partners:

rpsL

0.616

fri

0.600

rpmE

0.588

rplO

0.570

rpmJ

0.553

rpsE

0.525

rpsQ

0.515

rpsB

0.495

lin1940

0.491

rplP

0.485

Your Current Organism:

Listeria innocua

NCBI taxonomy Id: 272626
Other names: L. innocua Clip11262, Listeria innocua Clip11262, Listeria innocua str. Clip11262, Listeria innocua strain Clip11262

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
cspB	fri	gene:17566482	gene:17565272	Similar to major cold-shock protein.	Non-heme iron-binding ferritin; Protects DNA from oxidative damage by sequestering intracellular Fe(2+) ion and storing it in the form of Fe(3+) oxyhydroxide mineral. One hydrogen peroxide oxidizes two Fe(2+) ions, which prevents hydroxyl radical production by the Fenton reaction. Does not bind DNA; Belongs to the Dps family.	0.600
cspB	lin1940	gene:17566482	gene:17566298	Similar to major cold-shock protein.	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.	0.491
cspB	rplO	gene:17566482	gene:17567149	Similar to major cold-shock protein.	Ribosomal protein L15; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family.	0.570
cspB	rplP	gene:17566482	gene:17567161	Similar to major cold-shock protein.	Ribosomal protein L16; Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs; Belongs to the universal ribosomal protein uL16 family.	0.485
cspB	rpmE	gene:17566482	gene:17567072	Similar to major cold-shock protein.	Ribosomal protein L31.	0.588
cspB	rpmJ	gene:17566482	gene:17567145	Similar to major cold-shock protein.	Ribosomal protein L36; Belongs to the bacterial ribosomal protein bL36 family.	0.553
cspB	rpsB	gene:17566482	gene:17566098	Similar to major cold-shock protein.	30S ribosomal protein S2; Belongs to the universal ribosomal protein uS2 family.	0.495
cspB	rpsE	gene:17566482	gene:17567151	Similar to major cold-shock protein.	Ribosomal protein S5; With S4 and S12 plays an important role in translational accuracy; Belongs to the universal ribosomal protein uS5 family.	0.525
cspB	rpsL	gene:17566482	gene:17567192	Similar to major cold-shock protein.	Ribosomal protein S12; With S4 and S5 plays an important role in translational accuracy.	0.616
cspB	rpsQ	gene:17566482	gene:17567159	Similar to major cold-shock protein.	Ribosomal protein S17; One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA.	0.515
fri	cspB	gene:17565272	gene:17566482	Non-heme iron-binding ferritin; Protects DNA from oxidative damage by sequestering intracellular Fe(2+) ion and storing it in the form of Fe(3+) oxyhydroxide mineral. One hydrogen peroxide oxidizes two Fe(2+) ions, which prevents hydroxyl radical production by the Fenton reaction. Does not bind DNA; Belongs to the Dps family.	Similar to major cold-shock protein.	0.600
lin1940	cspB	gene:17566298	gene:17566482	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.	Similar to major cold-shock protein.	0.491
lin1940	rplO	gene:17566298	gene:17567149	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.	Ribosomal protein L15; Binds to the 23S rRNA; Belongs to the universal ribosomal protein uL15 family.	0.685
lin1940	rplP	gene:17566298	gene:17567161	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.	Ribosomal protein L16; Binds 23S rRNA and is also seen to make contacts with the A and possibly P site tRNAs; Belongs to the universal ribosomal protein uL16 family.	0.570
lin1940	rpmE	gene:17566298	gene:17567072	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.	Ribosomal protein L31.	0.465
lin1940	rpmJ	gene:17566298	gene:17567145	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.	Ribosomal protein L36; Belongs to the bacterial ribosomal protein bL36 family.	0.519
lin1940	rpsB	gene:17566298	gene:17566098	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.	30S ribosomal protein S2; Belongs to the universal ribosomal protein uS2 family.	0.956
lin1940	rpsE	gene:17566298	gene:17567151	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.	Ribosomal protein S5; With S4 and S12 plays an important role in translational accuracy; Belongs to the universal ribosomal protein uS5 family.	0.687
lin1940	rpsL	gene:17566298	gene:17567192	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.	Ribosomal protein S12; With S4 and S5 plays an important role in translational accuracy.	0.908
lin1940	rpsQ	gene:17566298	gene:17567159	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.	Ribosomal protein S17; One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA.	0.845