ytfJ protein (Ruminococcus albus 8) - 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

ytfJ

Sporulation protein YtfJ; Identified by match to protein family HMM PF09579; match to protein family HMM TIGR02874. (139 aa)

Predicted Functional Partners:

CUS_6616

0.802

CUS_7810

0.764

CUS_7812

0.749

CUS_5236

0.746

CUS_5966

0.740

spoIVA

0.729

CUS_5294

0.728

spoIIP

0.727

spoIIID

0.726

CUS_6913

0.720

Your Current Organism:

Ruminococcus albus 8

NCBI taxonomy Id: 246199
Other names: R. albus 8, Ruminococcus albus str. 8

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
CUS_5236	CUS_5294	CUS_5236	CUS_5294	Putative spore germination protein KA; Identified by match to protein family HMM PF03323.	Identified by match to protein family HMM PF04239.	0.730
CUS_5236	CUS_5966	CUS_5236	CUS_5966	Putative spore germination protein KA; Identified by match to protein family HMM PF03323.	Putative stage II sporulation protein E; Identified by match to protein family HMM PF07228.	0.788
CUS_5236	CUS_6913	CUS_5236	CUS_6913	Putative spore germination protein KA; Identified by match to protein family HMM PF03323.	Putative sporulation protein YunB.	0.515
CUS_5236	CUS_7810	CUS_5236	CUS_7810	Putative spore germination protein KA; Identified by match to protein family HMM PF03323.	Putative stage III sporulation protein AE.	0.747
CUS_5236	CUS_7812	CUS_5236	CUS_7812	Putative spore germination protein KA; Identified by match to protein family HMM PF03323.	Putative stage III sporulation protein AG.	0.732
CUS_5236	spoIIID	CUS_5236	CUS_7709	Putative spore germination protein KA; Identified by match to protein family HMM PF03323.	Stage III sporulation protein D.	0.767
CUS_5236	spoIIP	CUS_5236	CUS_7691	Putative spore germination protein KA; Identified by match to protein family HMM PF03323.	Stage II sporulation protein P; Identified by match to protein family HMM PF07454; match to protein family HMM TIGR02867.	0.755
CUS_5236	spoIVA	CUS_5236	CUS_7585	Putative spore germination protein KA; Identified by match to protein family HMM PF03323.	Stage IV sporulation protein A; Identified by match to protein family HMM PF09547; match to protein family HMM TIGR02836.	0.774
CUS_5236	ytfJ	CUS_5236	CUS_6615	Putative spore germination protein KA; Identified by match to protein family HMM PF03323.	Sporulation protein YtfJ; Identified by match to protein family HMM PF09579; match to protein family HMM TIGR02874.	0.746
CUS_5294	CUS_5236	CUS_5294	CUS_5236	Identified by match to protein family HMM PF04239.	Putative spore germination protein KA; Identified by match to protein family HMM PF03323.	0.730
CUS_5294	CUS_5966	CUS_5294	CUS_5966	Identified by match to protein family HMM PF04239.	Putative stage II sporulation protein E; Identified by match to protein family HMM PF07228.	0.689
CUS_5294	CUS_6913	CUS_5294	CUS_6913	Identified by match to protein family HMM PF04239.	Putative sporulation protein YunB.	0.516
CUS_5294	CUS_7810	CUS_5294	CUS_7810	Identified by match to protein family HMM PF04239.	Putative stage III sporulation protein AE.	0.649
CUS_5294	CUS_7812	CUS_5294	CUS_7812	Identified by match to protein family HMM PF04239.	Putative stage III sporulation protein AG.	0.557
CUS_5294	spoIIID	CUS_5294	CUS_7709	Identified by match to protein family HMM PF04239.	Stage III sporulation protein D.	0.401
CUS_5294	spoIIP	CUS_5294	CUS_7691	Identified by match to protein family HMM PF04239.	Stage II sporulation protein P; Identified by match to protein family HMM PF07454; match to protein family HMM TIGR02867.	0.632
CUS_5294	spoIVA	CUS_5294	CUS_7585	Identified by match to protein family HMM PF04239.	Stage IV sporulation protein A; Identified by match to protein family HMM PF09547; match to protein family HMM TIGR02836.	0.711
CUS_5294	ytfJ	CUS_5294	CUS_6615	Identified by match to protein family HMM PF04239.	Sporulation protein YtfJ; Identified by match to protein family HMM PF09579; match to protein family HMM TIGR02874.	0.728
CUS_5966	CUS_5236	CUS_5966	CUS_5236	Putative stage II sporulation protein E; Identified by match to protein family HMM PF07228.	Putative spore germination protein KA; Identified by match to protein family HMM PF03323.	0.788
CUS_5966	CUS_5294	CUS_5966	CUS_5294	Putative stage II sporulation protein E; Identified by match to protein family HMM PF07228.	Identified by match to protein family HMM PF04239.	0.689