(104 nodes) Positive regulation of transcription by RNA polymerase II network (Verticillium alfalfae)

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splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

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query proteins and first shell of interactors

white nodes:
second shell of interactors

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empty nodes:
proteins of unknown 3D structure

filled nodes:
a 3D structure is known or predicted

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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

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textmining

co-expression

protein homology

Your Input:
	VDBG_06588	BRCT domain-containing protein. (1132 aa)
	VDBG_00334	Transcription elongation factor Spt6; Plays a role in maintenance of chromatin structure during RNA polymerase II transcription elongation thereby repressing transcription initiation from cryptic promoters. Mediates the reassembly of nucleosomes onto the promoters of at least a selected set of genes during repression; the nucleosome reassembly is essential for transcriptional repression; Belongs to the SPT6 family. (1412 aa)
	VDBG_00363	Mediator of RNA polymerase II transcription subunit 1; Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene- specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. (526 aa)
	VDBG_00374	Predicted protein. (69 aa)
	VDBG_00441	RING-15 protein. (526 aa)
	VDBG_00464	E3 ubiquitin-protein ligase. (791 aa)
	VDBG_00565	PC4 domain-containing protein. (160 aa)
	VDBG_00739	Siderophore regulation protein. (581 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_00807	Uncharacterized protein. (490 aa)
	VDBG_01411	26S protease regulatory subunit 6A-B. (231 aa)
	VDBG_00980	NDT80 domain-containing protein. (566 aa)
	VDBG_01440	Uncharacterized protein. (1952 aa)
	VDBG_01014	Predicted protein. (226 aa)
	VDBG_01015	Zn(2)-C6 fungal-type domain-containing protein. (802 aa)
	VDBG_01044	Zn(2)-C6 fungal-type domain-containing protein. (958 aa)
	VDBG_01069	Cell division control protein. (345 aa)
	VDBG_00166	Zinc finger protein. (439 aa)
	VDBG_02086	SANT domain-containing protein. (538 aa)
	VDBG_02106	Transcription factor MBP1. (705 aa)
	VDBG_02141	SGF29 C-terminal domain-containing protein. (355 aa)
	VDBG_02216	TATA-binding protein-associated phosphoprotein. (138 aa)
	VDBG_02321	Uncharacterized protein. (616 aa)
	VDBG_01726	Plus3 domain-containing protein. (588 aa)
	VDBG_01782	MADS box protein. (218 aa)
	VDBG_01919	Transcriptional activator hac1. (130 aa)
	VDBG_01967	Post-SET domain-containing protein. (716 aa)
	VDBG_02005	RNA polymerase I activation mediator protein. (1176 aa)
	VDBG_02866	Beta-lactamase. (381 aa)
	VDBG_03030	Beta-lactamase family protein. (336 aa)
	VDBG_03266	CP2 domain-containing protein. (570 aa)
	VDBG_03345	Transcription factor prr1. (479 aa)
	VDBG_02589	Uncharacterized protein. (1399 aa)
	VDBG_03423	Uncharacterized protein. (445 aa)
	VDBG_02700	Predicted protein. (441 aa)
	VDBG_04162	CTD kinase subunit alpha. (792 aa)
	VDBG_04181	Serine/threonine-protein kinase crk1; Belongs to the protein kinase superfamily. (413 aa)
	VDBG_04231	VIB-1. (415 aa)
	VDBG_03629	26S protease regulatory subunit 6B; Belongs to the AAA ATPase family. (421 aa)
	VDBG_03657	Histone deacetylase clr3. (386 aa)
	VDBG_03658	Histone deacetylase clr3. (253 aa)
	VDBG_04293	ISWI chromatin-remodeling complex ATPase ISW2. (132 aa)
	VDBG_04301	Uncharacterized protein. (244 aa)
	VDBG_04309	SOM1 protein. (787 aa)
	VDBG_03707	MADS-box MEF2 type transcription factor. (933 aa)
	VDBG_04535	Uncharacterized protein. (106 aa)
	VDBG_04632	Transcriptional regulatory protein pro-1. (636 aa)
	VDBG_04729	26S protease regulatory subunit S10B; Belongs to the AAA ATPase family. (361 aa)
	VDBG_04816	Uncharacterized protein. (720 aa)
	VDBG_04863	Zn(2)-C6 fungal-type domain-containing protein. (772 aa)
	VDBG_04994	Fungal_trans domain-containing protein. (569 aa)
	VDBG_05005	Uncharacterized protein. (695 aa)
	VDBG_04368	GATA type zinc finger protein Asd4. (427 aa)
	VDBG_05105	HMG box protein. (446 aa)
	VDBG_05297	Beta-lactamase family protein. (312 aa)
	VDBG_05401	Glucose repression mediator protein CYC8. (861 aa)
	VDBG_05506	Proteasome 19S regulatory particle. (93 aa)
	VDBG_05536	DNA damage-responsive transcriptional repressor RPH1. (1504 aa)
	VDBG_05730	Uncharacterized protein. (134 aa)
	VDBG_05829	Uncharacterized protein. (76 aa)
	VDBG_05857	Nuclear transcription factor Y subunit B-3. (204 aa)
	VDBG_05979	Serine/threonine-protein kinase plo1. (1002 aa)
	VDBG_05997	Phosphorus acquisition-controlling protein. (346 aa)
	VDBG_06048	Oocyte zinc finger protein XlCOF20. (358 aa)
	VDBG_06117	Uncharacterized protein. (870 aa)
	VDBG_06134	BHLH domain-containing protein. (357 aa)
	VDBG_06500	Uncharacterized protein. (520 aa)
	VDBG_06814	DNA polymerase epsilon subunit C. (425 aa)
	VDBG_06876	Meiosis-specific transcription factor mei4. (747 aa)
	VDBG_07117	SPT23. (1402 aa)
	VDBG_07197	Uncharacterized protein. (649 aa)
	VDBG_07253	Neuraminidase domain-containing protein. (2489 aa)
	VDBG_07292	Uncharacterized protein. (460 aa)
	VDBG_07318	RPEL repeat protein. (116 aa)
	VDBG_07378	Uncharacterized protein. (67 aa)
	VDBG_07398	Cyclin-dependent kinases regulatory subunit; Binds to the catalytic subunit of the cyclin dependent kinases and is essential for their biological function. (112 aa)
	VDBG_06952	Nuclear transcription factor Y subunit C-4. (276 aa)
	VDBG_06973	FKH1. (186 aa)
	VDBG_06974	FKH1. (379 aa)
	VDBG_07828	Zn(2)-C6 fungal-type domain-containing protein. (1025 aa)
	VDBG_08003	Phosphate-non-repressible acid phosphatase. (333 aa)
	VDBG_08053	Uncharacterized protein. (262 aa)
	VDBG_08196	Abhydrolase_3 domain-containing protein. (498 aa)
	VDBG_08214	Cell differentiation protein rcd1. (305 aa)
	VDBG_08319	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. (721 aa)
	VDBG_08374	C6 zinc finger domain-containing protein. (628 aa)
	VDBG_08414	Uncharacterized protein. (504 aa)
	VDBG_08512	Quinic acid utilization activator. (722 aa)
	VDBG_08552	Start control protein cdc10. (821 aa)
	VDBG_08242	Histone deacetylase HOS3. (907 aa)
	VDBG_08650	Transcriptional repressor rco-1. (103 aa)
	VDBG_08855	pH-response transcription factor pacC/RIM101. (572 aa)
	VDBG_08856	Uncharacterized protein. (350 aa)
	VDBG_08876	ATPase family AAA domain-containing protein 2B. (1565 aa)
	VDBG_08887	SNF2 family ATP-dependent chromatin-remodeling factor snf21. (1392 aa)
	VDBG_09306	Copper-fist domain-containing protein. (335 aa)
	VDBG_09310	Histone acetyltransferase; Belongs to the MYST (SAS/MOZ) family. (973 aa)
	VDBG_09558	Zn(2)-C6 fungal-type domain-containing protein. (659 aa)
	VDBG_09588	Predicted protein. (617 aa)
	VDBG_09324	UDP-N-acetylglucosaminyltransferase. (1133 aa)
	VDBG_09325	UDP-N-acetylglucosamine-peptide N-acetylglucosaminyltransferase. (234 aa)
	VDBG_09326	MYB-1. (304 aa)
	VDBG_09456	Alpha/beta hydrolase fold-3 domain-containing protein. (355 aa)
	VDBG_09798	Predicted protein. (207 aa)

Your Current Organism:

Verticillium alfalfae

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

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
VDBG_00334	VDBG_00363	C9S5F5	C9S5N0	Transcription elongation factor Spt6; Plays a role in maintenance of chromatin structure during RNA polymerase II transcription elongation thereby repressing transcription initiation from cryptic promoters. Mediates the reassembly of nucleosomes onto the promoters of at least a selected set of genes during repression; the nucleosome reassembly is essential for transcriptional repression; Belongs to the SPT6 family.	Mediator of RNA polymerase II transcription subunit 1; Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene- specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.	0.419
VDBG_00334	VDBG_01069	C9S5F5	C9S8Y7	Transcription elongation factor Spt6; Plays a role in maintenance of chromatin structure during RNA polymerase II transcription elongation thereby repressing transcription initiation from cryptic promoters. Mediates the reassembly of nucleosomes onto the promoters of at least a selected set of genes during repression; the nucleosome reassembly is essential for transcriptional repression; Belongs to the SPT6 family.	Cell division control protein.	0.941
VDBG_00334	VDBG_01726	C9S5F5	C9SB67	Transcription elongation factor Spt6; Plays a role in maintenance of chromatin structure during RNA polymerase II transcription elongation thereby repressing transcription initiation from cryptic promoters. Mediates the reassembly of nucleosomes onto the promoters of at least a selected set of genes during repression; the nucleosome reassembly is essential for transcriptional repression; Belongs to the SPT6 family.	Plus3 domain-containing protein.	0.947
VDBG_00334	VDBG_04162	C9S5F5	C9SG39	Transcription elongation factor Spt6; Plays a role in maintenance of chromatin structure during RNA polymerase II transcription elongation thereby repressing transcription initiation from cryptic promoters. Mediates the reassembly of nucleosomes onto the promoters of at least a selected set of genes during repression; the nucleosome reassembly is essential for transcriptional repression; Belongs to the SPT6 family.	CTD kinase subunit alpha.	0.483
VDBG_00334	VDBG_04535	C9S5F5	C9SHK3	Transcription elongation factor Spt6; Plays a role in maintenance of chromatin structure during RNA polymerase II transcription elongation thereby repressing transcription initiation from cryptic promoters. Mediates the reassembly of nucleosomes onto the promoters of at least a selected set of genes during repression; the nucleosome reassembly is essential for transcriptional repression; Belongs to the SPT6 family.	Uncharacterized protein.	0.935
VDBG_00334	VDBG_07253	C9S5F5	C9SQL8	Transcription elongation factor Spt6; Plays a role in maintenance of chromatin structure during RNA polymerase II transcription elongation thereby repressing transcription initiation from cryptic promoters. Mediates the reassembly of nucleosomes onto the promoters of at least a selected set of genes during repression; the nucleosome reassembly is essential for transcriptional repression; Belongs to the SPT6 family.	Neuraminidase domain-containing protein.	0.605
VDBG_00334	VDBG_09588	C9S5F5	C9SWT7	Transcription elongation factor Spt6; Plays a role in maintenance of chromatin structure during RNA polymerase II transcription elongation thereby repressing transcription initiation from cryptic promoters. Mediates the reassembly of nucleosomes onto the promoters of at least a selected set of genes during repression; the nucleosome reassembly is essential for transcriptional repression; Belongs to the SPT6 family.	Predicted protein.	0.605
VDBG_00363	VDBG_00334	C9S5N0	C9S5F5	Mediator of RNA polymerase II transcription subunit 1; Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene- specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.	Transcription elongation factor Spt6; Plays a role in maintenance of chromatin structure during RNA polymerase II transcription elongation thereby repressing transcription initiation from cryptic promoters. Mediates the reassembly of nucleosomes onto the promoters of at least a selected set of genes during repression; the nucleosome reassembly is essential for transcriptional repression; Belongs to the SPT6 family.	0.419
VDBG_00363	VDBG_02005	C9S5N0	C9SC12	Mediator of RNA polymerase II transcription subunit 1; Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene- specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.	RNA polymerase I activation mediator protein.	0.551
VDBG_00363	VDBG_02589	C9S5N0	C9SE71	Mediator of RNA polymerase II transcription subunit 1; Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene- specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.	Uncharacterized protein.	0.533
VDBG_00363	VDBG_04162	C9S5N0	C9SG39	Mediator of RNA polymerase II transcription subunit 1; Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene- specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.	CTD kinase subunit alpha.	0.412
VDBG_00363	VDBG_04181	C9S5N0	C9SG58	Mediator of RNA polymerase II transcription subunit 1; Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene- specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.	Serine/threonine-protein kinase crk1; Belongs to the protein kinase superfamily.	0.521
VDBG_00363	VDBG_08319	C9S5N0	C9STP8	Mediator of RNA polymerase II transcription subunit 1; Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene- specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors.	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.	0.521
VDBG_00374	VDBG_02086	C9S5P1	C9S9B4	Predicted protein.	SANT domain-containing protein.	0.699
VDBG_00374	VDBG_04729	C9S5P1	C9SI47	Predicted protein.	26S protease regulatory subunit S10B; Belongs to the AAA ATPase family.	0.422
VDBG_00464	VDBG_07117	C9S618	C9SQ82	E3 ubiquitin-protein ligase.	SPT23.	0.663
VDBG_00739	VDBG_04181	C9S746	C9SG58	Siderophore regulation protein.	Serine/threonine-protein kinase crk1; Belongs to the protein kinase superfamily.	0.518
VDBG_00739	VDBG_04368	C9S746	C9SJ97	Siderophore regulation protein.	GATA type zinc finger protein Asd4.	0.421
VDBG_00739	VDBG_05857	C9S746	C9SLT3	Siderophore regulation protein.	Nuclear transcription factor Y subunit B-3.	0.655
VDBG_00739	VDBG_06952	C9S746	C9SR40	Siderophore regulation protein.	Nuclear transcription factor Y subunit C-4.	0.637