(7 nodes) TBP-class protein binding network (Caenorhabditis briggsae)

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:
	dro-1	Protein CBR-DRO-1. (173 aa)
	ttb-1	Protein CBR-TTB-1. (306 aa)
	CBG08996	Protein CBG08996. (134 aa)
	brf-1	Protein CBR-BRF-1. (781 aa)
	taf-12	Protein CBR-TAF-12. (330 aa)
	taf-1	Protein CBR-TAF-1. (1752 aa)
	gtf-2a2	Protein CBG20129. (119 aa)

Your Current Organism:

Caenorhabditis briggsae

NCBI taxonomy Id: 6238
Other names: C. briggsae, Caenorhabditis briggsae AF16

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TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

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structured XML interaction data, according to the 'PSI-MI' data standard

... protein node degrees:

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node degree of proteins in your network (given the current score cut-off)

... network coordinates:

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a flat-file format describing the coordinates and colors of nodes in the network

... protein sequences:

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MFA: multi-fasta format - containing the aminoacid sequences in the network

... protein annotations:

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a tab-delimited file describing the names, domains and descriptions of proteins in your network

... functional annotations:

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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
CBG08996	gtf-2a2	A8X820	A8XX52	Protein CBG08996.	Protein CBG20129.	0.904
CBG08996	taf-1	A8X820	A8XIB7	Protein CBG08996.	Protein CBR-TAF-1.	0.838
CBG08996	taf-12	A8X820	A8XHI9	Protein CBG08996.	Protein CBR-TAF-12.	0.820
CBG08996	ttb-1	A8X820	A8X282	Protein CBG08996.	Protein CBR-TTB-1.	0.956
brf-1	ttb-1	A8XH51	A8X282	Protein CBR-BRF-1.	Protein CBR-TTB-1.	0.789
dro-1	ttb-1	A8WKD3	A8X282	Protein CBR-DRO-1.	Protein CBR-TTB-1.	0.549
gtf-2a2	CBG08996	A8XX52	A8X820	Protein CBG20129.	Protein CBG08996.	0.904
gtf-2a2	taf-1	A8XX52	A8XIB7	Protein CBG20129.	Protein CBR-TAF-1.	0.938
gtf-2a2	taf-12	A8XX52	A8XHI9	Protein CBG20129.	Protein CBR-TAF-12.	0.912
gtf-2a2	ttb-1	A8XX52	A8X282	Protein CBG20129.	Protein CBR-TTB-1.	0.990
taf-1	CBG08996	A8XIB7	A8X820	Protein CBR-TAF-1.	Protein CBG08996.	0.838
taf-1	gtf-2a2	A8XIB7	A8XX52	Protein CBR-TAF-1.	Protein CBG20129.	0.938
taf-1	taf-12	A8XIB7	A8XHI9	Protein CBR-TAF-1.	Protein CBR-TAF-12.	0.999
taf-1	ttb-1	A8XIB7	A8X282	Protein CBR-TAF-1.	Protein CBR-TTB-1.	0.983
taf-12	CBG08996	A8XHI9	A8X820	Protein CBR-TAF-12.	Protein CBG08996.	0.820
taf-12	gtf-2a2	A8XHI9	A8XX52	Protein CBR-TAF-12.	Protein CBG20129.	0.912
taf-12	taf-1	A8XHI9	A8XIB7	Protein CBR-TAF-12.	Protein CBR-TAF-1.	0.999
taf-12	ttb-1	A8XHI9	A8X282	Protein CBR-TAF-12.	Protein CBR-TTB-1.	0.955
ttb-1	CBG08996	A8X282	A8X820	Protein CBR-TTB-1.	Protein CBG08996.	0.956
ttb-1	brf-1	A8X282	A8XH51	Protein CBR-TTB-1.	Protein CBR-BRF-1.	0.789