(35 nodes) RNA Polymerase II Transcription Elongation network (Aspergillus bombycis)

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.

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query proteins and first shell of interactors

white nodes:
second shell of interactors

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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:
	ABOM_002514	DNA-directed RNA polymerases I. (214 aa)
	ABOM_002482	TFIIH complex helicase Rad3. (794 aa)
	ABOM_003626	Transcription elongation factor SPT5; The SPT4-SPT5 complex mediates both activation and inhibition of transcription elongation, and plays a role in pre-mRNA processing. This complex seems to be important for the stability of the RNA polymerase II elongation machinery on the chromatin template but not for the inherent ability of this machinery to translocate down the gene. (1050 aa)
	ABOM_005206	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. (1423 aa)
	ABOM_006158	Putative TFIIH complex helicase Ssl2. (812 aa)
	ABOM_007105	DNA-directed RNA polymerase subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Belongs to the archaeal rpoM/eukaryotic RPA12/RPB9/RPC11 RNA polymerase family. (128 aa)
	ABOM_007109	Nuclear cap-binding protein subunit 2. (177 aa)
	ABOM_006885	RNA polymerase-associated protein LEO1. (470 aa)
	ABOM_007142	TFIIH basal transcription factor complex p47 subunit. (216 aa)
	ABOM_008558	Polymerase (RNA) II (DNA directed) polypeptide D. (148 aa)
	ABOM_008466	DNA-directed RNA polymerases I. (159 aa)
	ABOM_009429	Putative DNA-directed RNA polymerase II subunit RPB11a. (125 aa)
	ABOM_008284	RNA polymerase II transcription elongation factor (Ctr9). (1298 aa)
	ABOM_009349	Transcription factor TFIIH complex subunit. (376 aa)
	ABOM_009169	RNA polymerase II subunit A C-terminal domain phosphatase; This promotes the activity of RNA polymerase II. (810 aa)
	ABOM_008612	DNA-directed RNA polymerases I, II, and III subunit RPABC3; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Common component of RNA polymerases I, II and III which synthesize ribosomal RNA precursors, mRNA precursors and many functional non- coding RNAs, and small RNAs, such as 5S rRNA and tRNAs, respectively. (144 aa)
	ABOM_009971	RNA polymerase II transcription factor B subunit 5. (73 aa)
	ABOM_008758	snRNA cap binding complex subunit (Gcr3). (851 aa)
	ABOM_010274	DNA-directed RNA polymerase II subunit RPB3. (339 aa)
	ABOM_010250	Uncharacterized protein. (705 aa)
	ABOM_010290	Uncharacterized protein. (585 aa)
	ABOM_009780	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. (714 aa)
	ABOM_010106	Pol II transcription elongation factor subunit Cdc73. (470 aa)
	ABOM_009567	RNA polymerase II transcription elongation factor Rtf1p. (600 aa)
	ABOM_010454	RNA polymerase II transcription factor B subunit 2; 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. (509 aa)
	ABOM_011556	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1204 aa)
	ABOM_001112	Transcription elongation factor SPT4; The SPT4-SPT5 complex mediates both activation and inhibition of transcription elongation, and plays a role in pre-mRNA processing. This complex seems to be important for the stability of the RNA polymerase II elongation machinery on the chromatin template but not for the inherent ability of this machinery to translocate down the gene. (120 aa)
	ABOM_000443	Uncharacterized protein. (764 aa)
	ABOM_000462	Transcription initiation factor IIF subunit beta. (374 aa)
	ABOM_011976	RNA polymerase II transcription factor subunit 1. (683 aa)
	ABOM_011332	Glutaminase. (715 aa)
	ABOM_011423	RNA polymerase II transcription factor B subunit 3. (378 aa)
	ABOM_004999	Transcription factor iws1. (427 aa)
	ABOM_001402	DNA-directed RNA polymerase subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1748 aa)
	ABOM_002355	DNA-directed RNA polymerases I. (73 aa)

Your Current Organism:

Aspergillus bombycis

NCBI taxonomy Id: 109264
Other names: A. bombycis, Aspergillus bombycis S.W. Peterson, Yoko Ito, B.W. Horn & T. Goto, 2001, CBS 117187, NRRL 26010

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
ABOM_000443	ABOM_000462	A0A1F8AGK8	A0A1F8AGT2	Uncharacterized protein.	Transcription initiation factor IIF subunit beta.	0.991
ABOM_000443	ABOM_001112	A0A1F8AGK8	A0A1F8AF76	Uncharacterized protein.	Transcription elongation factor SPT4; The SPT4-SPT5 complex mediates both activation and inhibition of transcription elongation, and plays a role in pre-mRNA processing. This complex seems to be important for the stability of the RNA polymerase II elongation machinery on the chromatin template but not for the inherent ability of this machinery to translocate down the gene.	0.996
ABOM_000443	ABOM_001402	A0A1F8AGK8	A0A1F8AF07	Uncharacterized protein.	DNA-directed RNA polymerase subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.781
ABOM_000443	ABOM_002355	A0A1F8AGK8	A0A1F8ABN5	Uncharacterized protein.	DNA-directed RNA polymerases I.	0.999
ABOM_000443	ABOM_002482	A0A1F8AGK8	A0A1F8AA25	Uncharacterized protein.	TFIIH complex helicase Rad3.	0.975
ABOM_000443	ABOM_002514	A0A1F8AGK8	A0A1F8AAY4	Uncharacterized protein.	DNA-directed RNA polymerases I.	0.999
ABOM_000443	ABOM_003626	A0A1F8AGK8	A0A1F8A5M7	Uncharacterized protein.	Transcription elongation factor SPT5; The SPT4-SPT5 complex mediates both activation and inhibition of transcription elongation, and plays a role in pre-mRNA processing. This complex seems to be important for the stability of the RNA polymerase II elongation machinery on the chromatin template but not for the inherent ability of this machinery to translocate down the gene.	0.996
ABOM_000443	ABOM_004999	A0A1F8AGK8	A0A1F8A685	Uncharacterized protein.	Transcription factor iws1.	0.662
ABOM_000443	ABOM_005206	A0A1F8AGK8	A0A1F8A2K7	Uncharacterized protein.	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.	0.953
ABOM_000443	ABOM_006158	A0A1F8AGK8	A0A1F8A0H5	Uncharacterized protein.	Putative TFIIH complex helicase Ssl2.	0.969
ABOM_000443	ABOM_006885	A0A1F8AGK8	A0A1F7ZWD8	Uncharacterized protein.	RNA polymerase-associated protein LEO1.	0.911
ABOM_000443	ABOM_007105	A0A1F8AGK8	A0A1F7ZZQ2	Uncharacterized protein.	DNA-directed RNA polymerase subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Belongs to the archaeal rpoM/eukaryotic RPA12/RPB9/RPC11 RNA polymerase family.	0.999
ABOM_000443	ABOM_007109	A0A1F8AGK8	A0A1F7ZZP5	Uncharacterized protein.	Nuclear cap-binding protein subunit 2.	0.712
ABOM_000443	ABOM_007142	A0A1F8AGK8	A0A1F7ZWC3	Uncharacterized protein.	TFIIH basal transcription factor complex p47 subunit.	0.969
ABOM_000443	ABOM_008284	A0A1F8AGK8	A0A1F7ZSI4	Uncharacterized protein.	RNA polymerase II transcription elongation factor (Ctr9).	0.935
ABOM_000443	ABOM_008466	A0A1F8AGK8	A0A1F7ZU28	Uncharacterized protein.	DNA-directed RNA polymerases I.	0.999
ABOM_000443	ABOM_008558	A0A1F8AGK8	A0A1F7ZVZ8	Uncharacterized protein.	Polymerase (RNA) II (DNA directed) polypeptide D.	0.999
ABOM_000443	ABOM_008612	A0A1F8AGK8	A0A1F7ZRM1	Uncharacterized protein.	DNA-directed RNA polymerases I, II, and III subunit RPABC3; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Common component of RNA polymerases I, II and III which synthesize ribosomal RNA precursors, mRNA precursors and many functional non- coding RNAs, and small RNAs, such as 5S rRNA and tRNAs, respectively.	0.999
ABOM_000443	ABOM_009169	A0A1F8AGK8	A0A1F7ZRP6	Uncharacterized protein.	RNA polymerase II subunit A C-terminal domain phosphatase; This promotes the activity of RNA polymerase II.	0.979
ABOM_000443	ABOM_009349	A0A1F8AGK8	A0A1F7ZRU5	Uncharacterized protein.	Transcription factor TFIIH complex subunit.	0.969