(10 nodes) TBP-class protein binding network (Verticillium alfalfae)

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:
	VDBG_03609	Transcription initiation factor TFIID subunit 12. (763 aa)
	VDBG_03708	Transcription initiation factor TFIID subunit 1. (1106 aa)
	VDBG_06375	Transcription initiation factor IIB. (352 aa)
	VDBG_08898	TATA-binding protein-associated factor MOT1. (1876 aa)
	VDBG_08370	Uncharacterized protein. (275 aa)
	VDBG_06529	Cullin-associated NEDD8-dissociated protein. (1302 aa)
	VDBG_00773	Transcription initiation factor IIA subunit 2; TFIIA is a component of the transcription machinery of RNA polymerase II and plays an important role in transcriptional activation; Belongs to the TFIIA subunit 2 family. (115 aa)
	VDBG_00804	Uncharacterized protein. (349 aa)
	VDBG_01455	Transcription factor tfiiib complex subunit brf1. (681 aa)
	VDBG_01878	Transcription factor SPT8. (571 aa)

Your Current Organism:

Verticillium alfalfae

NCBI taxonomy Id: 526221
Other names: V. alfalfae VaMs.102, Verticillium alfalfae VaMs.102

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
VDBG_00773	VDBG_03609	C9S780	C9SGG0	Transcription initiation factor IIA subunit 2; TFIIA is a component of the transcription machinery of RNA polymerase II and plays an important role in transcriptional activation; Belongs to the TFIIA subunit 2 family.	Transcription initiation factor TFIID subunit 12.	0.788
VDBG_00773	VDBG_03708	C9S780	C9SH05	Transcription initiation factor IIA subunit 2; TFIIA is a component of the transcription machinery of RNA polymerase II and plays an important role in transcriptional activation; Belongs to the TFIIA subunit 2 family.	Transcription initiation factor TFIID subunit 1.	0.832
VDBG_00773	VDBG_06375	C9S780	C9SNA0	Transcription initiation factor IIA subunit 2; TFIIA is a component of the transcription machinery of RNA polymerase II and plays an important role in transcriptional activation; Belongs to the TFIIA subunit 2 family.	Transcription initiation factor IIB.	0.955
VDBG_00804	VDBG_01455	C9S7B1	C9S8F6	Uncharacterized protein.	Transcription factor tfiiib complex subunit brf1.	0.553
VDBG_01455	VDBG_00804	C9S8F6	C9S7B1	Transcription factor tfiiib complex subunit brf1.	Uncharacterized protein.	0.553
VDBG_01455	VDBG_06375	C9S8F6	C9SNA0	Transcription factor tfiiib complex subunit brf1.	Transcription initiation factor IIB.	0.577
VDBG_01878	VDBG_03609	C9SBN5	C9SGG0	Transcription factor SPT8.	Transcription initiation factor TFIID subunit 12.	0.834
VDBG_03609	VDBG_00773	C9SGG0	C9S780	Transcription initiation factor TFIID subunit 12.	Transcription initiation factor IIA subunit 2; TFIIA is a component of the transcription machinery of RNA polymerase II and plays an important role in transcriptional activation; Belongs to the TFIIA subunit 2 family.	0.788
VDBG_03609	VDBG_01878	C9SGG0	C9SBN5	Transcription initiation factor TFIID subunit 12.	Transcription factor SPT8.	0.834
VDBG_03609	VDBG_03708	C9SGG0	C9SH05	Transcription initiation factor TFIID subunit 12.	Transcription initiation factor TFIID subunit 1.	0.999
VDBG_03609	VDBG_06375	C9SGG0	C9SNA0	Transcription initiation factor TFIID subunit 12.	Transcription initiation factor IIB.	0.973
VDBG_03609	VDBG_08370	C9SGG0	C9STU9	Transcription initiation factor TFIID subunit 12.	Uncharacterized protein.	0.788
VDBG_03609	VDBG_08898	C9SGG0	C9SVH3	Transcription initiation factor TFIID subunit 12.	TATA-binding protein-associated factor MOT1.	0.534
VDBG_03708	VDBG_00773	C9SH05	C9S780	Transcription initiation factor TFIID subunit 1.	Transcription initiation factor IIA subunit 2; TFIIA is a component of the transcription machinery of RNA polymerase II and plays an important role in transcriptional activation; Belongs to the TFIIA subunit 2 family.	0.832
VDBG_03708	VDBG_03609	C9SH05	C9SGG0	Transcription initiation factor TFIID subunit 1.	Transcription initiation factor TFIID subunit 12.	0.999
VDBG_03708	VDBG_06375	C9SH05	C9SNA0	Transcription initiation factor TFIID subunit 1.	Transcription initiation factor IIB.	0.991
VDBG_03708	VDBG_08370	C9SH05	C9STU9	Transcription initiation factor TFIID subunit 1.	Uncharacterized protein.	0.818
VDBG_03708	VDBG_08898	C9SH05	C9SVH3	Transcription initiation factor TFIID subunit 1.	TATA-binding protein-associated factor MOT1.	0.555
VDBG_06375	VDBG_00773	C9SNA0	C9S780	Transcription initiation factor IIB.	Transcription initiation factor IIA subunit 2; TFIIA is a component of the transcription machinery of RNA polymerase II and plays an important role in transcriptional activation; Belongs to the TFIIA subunit 2 family.	0.955
VDBG_06375	VDBG_01455	C9SNA0	C9S8F6	Transcription initiation factor IIB.	Transcription factor tfiiib complex subunit brf1.	0.577