(68 nodes) Basal transcription factors network (Daphnia magna)

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:
	APZ42_014299	General transcription factor IIH subunit. (427 aa)
	APZ42_019873	26S proteasome non-ATPase regulatory subunit 6. (234 aa)
	APZ42_014504	Transcription initiation factor TFIID subunit 9. (229 aa)
	APZ42_021706	Serine/threonine/tyrosine-interacting protein. (205 aa)
	APZ42_020292	Inhibitor of growth protein. (263 aa)
	APZ42_010999	General transcription factor IIE subunit 1. (422 aa)
	EOG090X0HZC	Transcription initiation factor TFIID subunit 12. (136 aa)
	EOG090X0BPM	CDK-activating kinase assembly factor MAT1. (344 aa)
	EOG090X02QS	Negative elongation factor C/D. (584 aa)
	APZ42_027379	Transcription initiation factor TFIID subunit 6. (601 aa)
	APZ42_033610	PHD domain-containing protein. (297 aa)
	APZ42_031304	SWIM-type domain-containing protein. (749 aa)
	APZ42_029936	Uncharacterized protein. (223 aa)
	APZ42_029692	General transcription factor IIF subunit 2; TFIIF is a general transcription initiation factor that binds to RNA polymerase II and helps to recruit it to the initiation complex in collaboration with TFIIB. It promotes transcription elongation. This subunit shows ATP-dependent DNA-helicase activity. (268 aa)
	APZ42_029471	Uncharacterized protein. (1081 aa)
	APZ42_028894	MULE domain-containing protein. (454 aa)
	APZ42_026818	General transcription factor IIH subunit 4; Component of the general transcription and DNA repair factor IIH (TFIIH) core complex which is involved in general and transcription-coupled nucleotide excision repair (NER) of damaged DNA. Belongs to the TFB2 family. (465 aa)
	APZ42_026689	General transcription factor IIH subunit 4; Component of the general transcription and DNA repair factor IIH (TFIIH) core complex which is involved in general and transcription-coupled nucleotide excision repair (NER) of damaged DNA. Belongs to the TFB2 family. (197 aa)
	APZ42_025794	CRAL-TRIO domain-containing protein. (690 aa)
	APZ42_025236	SWIM-type domain-containing protein. (1295 aa)
	APZ42_024710	MULE domain-containing protein. (638 aa)
	APZ42_024009	Putative Transcription initiation factor TFIID subunit 2. (1846 aa)
	APZ42_024207	Transcription initiation factor TFIID subunit 5. (678 aa)
	APZ42_022027	Uncharacterized protein. (602 aa)
	APZ42_021138	General transcription factor IIH subunit 1. (567 aa)
	APZ42_021147	Putative Transcription initiation factor TFIID subunit 11. (261 aa)
	APZ42_019925	TATA box binding protein tbp-associated factor. (142 aa)
	APZ42_019453	Putative WD repeat-containing protein 3. (566 aa)
	APZ42_019320	Transcription initiation factor IIF subunit alpha; TFIIF is a general transcription initiation factor that binds to RNA polymerase II and helps to recruit it to the initiation complex in collaboration with TFIIB. It promotes transcription elongation. Belongs to the TFIIF alpha subunit family. (546 aa)
	APZ42_018784	Protein RRP5. (1536 aa)
	APZ42_018155	MI domain-containing protein. (1549 aa)
	APZ42_017406	HemK methyltransferase family member 2. (218 aa)
	APZ42_016542	Transcription initiation factor TFIID subunit 1. (1826 aa)
	APZ42_016184	Cyclin-dependent kinase 20. (195 aa)
	APZ42_007681	Uncharacterized protein. (112 aa)
	APZ42_006540	MULE domain-containing protein. (189 aa)
	APZ42_005624	MULE domain-containing protein. (320 aa)
	APZ42_004573	MULE domain-containing protein. (257 aa)
	APZ42_002910	Putative TATA box binding protein-related factor. (97 aa)
	APZ42_002218	MULE domain-containing protein. (204 aa)
	APZ42_034382	Transcription initiation factor IIB. (319 aa)
	APZ42_034260	MULE domain-containing protein. (270 aa)
	APZ42_034156	Uncharacterized protein. (464 aa)
	APZ42_033665	Putative rRNA-processing protein EBP2. (328 aa)
	APZ42_017207	Transcription initiation factor IIE subunit beta; Recruits TFIIH to the initiation complex and stimulates the RNA polymerase II C-terminal domain kinase and DNA-dependent ATPase activities of TFIIH. Both TFIIH and TFIIE are required for promoter clearance by RNA polymerase. (280 aa)
	APZ42_014754	Transcription initiation factor IIa subunit 1. (325 aa)
	APZ42_016450	Putative Transcription initiation factor TFIID subunit 4. (997 aa)
	APZ42_015392	Transcription initiation factor TFIID subunit 8. (292 aa)
	APZ42_011042	D-2-hydroxyglutarate dehydrogenase, mitochondrial. (507 aa)
	APZ42_011202	Transcription initiation factor IIE subunit beta; Recruits TFIIH to the initiation complex and stimulates the RNA polymerase II C-terminal domain kinase and DNA-dependent ATPase activities of TFIIH. Both TFIIH and TFIIE are required for promoter clearance by RNA polymerase. (280 aa)
	APZ42_012369	YqaJ domain-containing protein. (320 aa)
	APZ42_013561	TAF6 RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 6L-like protein. (534 aa)
	APZ42_013830	Putative Stonin-1. (1840 aa)
	APZ42_014446	SWIM-type domain-containing protein. (566 aa)
	APZ42_014775	TATA box binding protein-related factor. (236 aa)
	APZ42_015388	TFIIH basal transcription factor complex helicase XPB subunit. (797 aa)
	EOG090X080D	EOG090X080D; Belongs to the cyclin family. (328 aa)
	APZ42_015656	Putative Transcription initiation factor TFIID subunit 3. (928 aa)
	APZ42_015993	Beag. (547 aa)
	APZ42_032266	Transcription initiation factor IIA subunit 2. (159 aa)
	APZ42_004559	MULE domain-containing protein. (170 aa)
	APZ42_028327	Cyclin-dependent kinase 7; Belongs to the protein kinase superfamily. (379 aa)
	APZ42_011391	Inhibitor of growth protein. (320 aa)
	APZ42_018611	TFIIH basal transcription factor complex helicase XPD subunit. (760 aa)
	APZ42_027296	Transcription initiation factor TFIID subunit 7. (376 aa)
	APZ42_032789	Transcription initiation factor iib general transcription factor tfiib. (308 aa)
	APZ42_026392	TATA-box-binding protein. (311 aa)
	APZ42_017930	Inhibitor of growth protein. (392 aa)

Your Current Organism:

Daphnia magna

NCBI taxonomy Id: 35525
Other names: D. magna

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
APZ42_002218	APZ42_013561	A0A164IFB8	A0A162QL97	MULE domain-containing protein.	TAF6 RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 6L-like protein.	0.566
APZ42_002218	APZ42_015656	A0A164IFB8	A0A162NTQ4	MULE domain-containing protein.	Putative Transcription initiation factor TFIID subunit 3.	0.480
APZ42_002218	APZ42_016450	A0A164IFB8	A0A0P4YEW1	MULE domain-containing protein.	Putative Transcription initiation factor TFIID subunit 4.	0.539
APZ42_002218	APZ42_016542	A0A164IFB8	A0A165AHB0	MULE domain-containing protein.	Transcription initiation factor TFIID subunit 1.	0.570
APZ42_002218	APZ42_019925	A0A164IFB8	A0A164XUE7	MULE domain-containing protein.	TATA box binding protein tbp-associated factor.	0.537
APZ42_002218	APZ42_021147	A0A164IFB8	A0A164X125	MULE domain-containing protein.	Putative Transcription initiation factor TFIID subunit 11.	0.527
APZ42_002218	APZ42_024009	A0A164IFB8	A0A164UE43	MULE domain-containing protein.	Putative Transcription initiation factor TFIID subunit 2.	0.567
APZ42_002218	APZ42_027379	A0A164IFB8	A0A0P5CCY5	MULE domain-containing protein.	Transcription initiation factor TFIID subunit 6.	0.566
APZ42_002218	EOG090X0HZC	A0A164IFB8	A0A0P5JXH8	MULE domain-containing protein.	Transcription initiation factor TFIID subunit 12.	0.515
APZ42_002910	APZ42_010999	A0A164HYK9	A0A0P5LGD3	Putative TATA box binding protein-related factor.	General transcription factor IIE subunit 1.	0.968
APZ42_002910	APZ42_011202	A0A164HYK9	A0A162SGS6	Putative TATA box binding protein-related factor.	Transcription initiation factor IIE subunit beta; Recruits TFIIH to the initiation complex and stimulates the RNA polymerase II C-terminal domain kinase and DNA-dependent ATPase activities of TFIIH. Both TFIIH and TFIIE are required for promoter clearance by RNA polymerase.	0.895
APZ42_002910	APZ42_013561	A0A164HYK9	A0A162QL97	Putative TATA box binding protein-related factor.	TAF6 RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 6L-like protein.	0.912
APZ42_002910	APZ42_014299	A0A164HYK9	A0A0P5VYR5	Putative TATA box binding protein-related factor.	General transcription factor IIH subunit.	0.941
APZ42_002910	APZ42_014504	A0A164HYK9	A0A0P5UWN3	Putative TATA box binding protein-related factor.	Transcription initiation factor TFIID subunit 9.	0.965
APZ42_002910	APZ42_014754	A0A164HYK9	A0A0P4YM85	Putative TATA box binding protein-related factor.	Transcription initiation factor IIa subunit 1.	0.963
APZ42_002910	APZ42_015388	A0A164HYK9	A0A162PFH9	Putative TATA box binding protein-related factor.	TFIIH basal transcription factor complex helicase XPB subunit.	0.957
APZ42_002910	APZ42_015392	A0A164HYK9	A0A0N8AQ44	Putative TATA box binding protein-related factor.	Transcription initiation factor TFIID subunit 8.	0.957
APZ42_002910	APZ42_015656	A0A164HYK9	A0A162NTQ4	Putative TATA box binding protein-related factor.	Putative Transcription initiation factor TFIID subunit 3.	0.923
APZ42_002910	APZ42_016184	A0A164HYK9	A0A165AJN1	Putative TATA box binding protein-related factor.	Cyclin-dependent kinase 20.	0.798
APZ42_002910	APZ42_016450	A0A164HYK9	A0A0P4YEW1	Putative TATA box binding protein-related factor.	Putative Transcription initiation factor TFIID subunit 4.	0.966