Annotations: 7O4K

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
M [auth G]	SCOP2B Superfamily	N-terminal heterodimerisation domain of RBP7 (RpoE)	8044252	3001137	SCOP2B (2022-06-29)
M [auth G]	SCOP2B Superfamily	Nucleic acid-binding proteins	8044251	3000135	SCOP2B (2022-06-29)
B [auth 1]	SCOP2B Superfamily	PH domain-like	8034115	3000134	SCOP2B (2022-06-29)
F [auth 5]	SCOP2B Superfamily	TFB5-like	8086592	3000733	SCOP2B (2022-06-29)
G [auth 6]	SCOP2B Superfamily	vWA-like	8057085	3000832	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A [auth 0]	HBB	e7o4k03	A: a+b two layers	X: XPD arch domain (From Topology)	H: XPD arch domain (From Topology)	T: XPD arch domain	F: HBB	ECOD (1.6)
A [auth 0]	DEAD_2	e7o4k02	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: DEAD_2	ECOD (1.6)
A [auth 0]	Helicase_C_2	e7o4k01	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Helicase_C_2	ECOD (1.6)
J [auth B]	RNA_pol_Rpb2_7	e7o4kB1	A: a+b complex topology	X: C-terminal domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	H: C-terminal domain in beta subunit of DNA dependent RNA-polymerase (From Topology)	T: C-terminal domain in beta subunit of DNA dependent RNA-polymerase	F: RNA_pol_Rpb2_7	ECOD (1.6)
K [auth D]	RNA_pol_Rpb4	e7o4kD1	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: RNA_pol_Rpb4	ECOD (1.6)
L [auth F]	RNA_pol_Rpb6_1	e7o4kF1	A: alpha arrays	X: RPB6/omega subunit-like (From Homology)	H: RPB6/omega subunit-like	T: RPB6	F: RNA_pol_Rpb6_1	ECOD (1.6)
M [auth G]	S1_1	e7o4kG2	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: S1_1	ECOD (1.6)
M [auth G]	SHS2_Rpb7-N	e7o4kG1	A: a+b two layers	X: Dodecin subunit-like	H: Flavin-binding protein dodecin-like (From Topology)	T: Flavin-binding protein dodecin-like	F: SHS2_Rpb7-N	ECOD (1.6)
D [auth 3]	zf-C3HC4_4	e7o4k31	A: few secondary structure elements	X: RING/U-box-like	H: RING/U-box-like	T: RING/U-box	F: zf-C3HC4_4	ECOD (1.6)
D [auth 3]	F_UNCLASSIFIED	e7o4k32	A: few secondary structure elements	X: beta-beta-alpha zinc fingers	H: beta-beta-alpha zinc fingers (From Topology)	T: beta-beta-alpha zinc fingers	F: F_UNCLASSIFIED	ECOD (1.6)
E [auth 4]	Tfb4	e7o4k41	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: vWA-like	F: Tfb4	ECOD (1.6)
E [auth 4]	F_UNCLASSIFIED	e7o4k42	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: F_UNCLASSIFIED	ECOD (1.6)
F [auth 5]	Tfb5	e7o4k51	A: a+b complex topology	X: TFB5-related (From Topology)	H: TFB5-related (From Topology)	T: TFB5-related	F: Tfb5	ECOD (1.6)
G [auth 6]	VWA	e7o4k63	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: vWA-like	F: VWA	ECOD (1.6)
G [auth 6]	F_UNCLASSIFIED	e7o4k62	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: F_UNCLASSIFIED	ECOD (1.6)
G [auth 6]	C1_4	e7o4k61	A: few secondary structure elements	X: RING/U-box-like	H: RING/U-box-like	T: Cysteine-rich domain	F: C1_4	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth 0]	PF13307	Helicase C-terminal domain (Helicase_C_2)	Helicase C-terminal domain	This domain is found at the C-terminus of DEAD-box helicases.	Domain
A [auth 0]	PF06777	Helical and beta-bridge domain (HBB)	Helical and beta-bridge domain	HBB is the domain on DEAD-box eukaryotic DNA repair helicases (EC:3.6.1.-) that appears to be a unique fold. It's conformation is of alpha-helices 12-16 plus a short beta-bridge to the FeS-cluster domain at the N-terminal. The full-length XPD protein ...	HBB is the domain on DEAD-box eukaryotic DNA repair helicases (EC:3.6.1.-) that appears to be a unique fold. It's conformation is of alpha-helices 12-16 plus a short beta-bridge to the FeS-cluster domain at the N-terminal. The full-length XPD protein verifies the presence of damage to DNA and allows DNA repair to proceed. XPD is an assembly of several domains to form a doughnut-shaped molecule that is able to separate two DNA strands and scan the DNA for damage. HBB helps to form the overall DNA-clamping architecture [1]. This family represents a conserved region within a number of eukaryotic DNA repair helicases (EC:3.6.1.-).	Domain
A [auth 0]	PF06733	DEAD_2 (DEAD_2)	DEAD_2	-	Family
J [auth B]	PF04560	RNA polymerase Rpb2, domain 7 (RNA_pol_Rpb2_7)	RNA polymerase Rpb2, domain 7	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Rpb2 is the second largest subunit of the RNA p ...	RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Rpb2 is the second largest subunit of the RNA polymerase. This domain comprised of the structural domains anchor and clamp [1]. The clamp region (C-terminal) contains a zinc-binding motif [1]. The clamp region is named due to its interaction with the clamp domain found in Rpb1. The domain also contains a region termed "switch 4". The switches within the polymerase are thought to signal different stages of transcription [1].	Domain
K [auth D]	PF03874	RNA polymerase Rpb4 (RNA_pol_Rpb4)	RNA polymerase Rpb4	-	Family
L [auth F]	PF01192	RNA polymerase Rpb6 (RNA_pol_Rpb6)	RNA polymerase Rpb6	-	Family
M [auth G]	PF03876	SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397 (SHS2_Rpb7-N)	SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397	Rpb7 bind to Rpb4 to form a heterodimer. This complex is thought to interact with the nascent RNA strand during RNA polymerase II elongation[1]. This family includes the homologs from RNA polymerase I and III. In RNA polymerase I, Rpa43 is at leas ...	Rpb7 bind to Rpb4 to form a heterodimer. This complex is thought to interact with the nascent RNA strand during RNA polymerase II elongation[1]. This family includes the homologs from RNA polymerase I and III. In RNA polymerase I, Rpa43 is at least one of the subunits contacted by the transcription factor TIF-IA [2]. The N terminus of Rpb7p/Rpc25p/MJ0397 has a SHS2 domain that is involved in protein-protein interaction [3].	Domain
M [auth G]	PF00575	S1 RNA binding domain (S1)	S1 RNA binding domain	The S1 domain occurs in a wide range of RNA associated proteins. It is structurally similar to cold shock protein which binds nucleic acids. The S1 domain has an OB-fold structure.	Domain
P [auth W]	PF02002	TFIIE alpha subunit (TFIIE_alpha)	TFIIE alpha subunit	-	Family
Q [auth X]	PF18121	TFA2 Winged helix domain 2 (TFA2_Winged_2)	TFA2 Winged helix domain 2	This is the second winged helix domain can be found in TFA2 proteins present in Saccharomyces cerevisiae. In form 2, the domain interacts directly with Rad3, a DNA helicase [1].	Domain
Q [auth X]	PF02186	TFIIE beta subunit core domain (TFIIE_beta)	TFIIE beta subunit core domain	General transcription factor TFIIE consists of two subunits, TFIIE alpha Pfam:PF02002 and TFIIE beta. TFIIE beta has been found to bind to the region where the promoter starts to open to be single-stranded upon transcription initiation by RNA polymer ...	General transcription factor TFIIE consists of two subunits, TFIIE alpha Pfam:PF02002 and TFIIE beta. TFIIE beta has been found to bind to the region where the promoter starts to open to be single-stranded upon transcription initiation by RNA polymerase II. The structure of the DNA binding core region has been solved [1] and has a winged helix fold.	Domain
B [auth 1]	PF03909	BSD domain (BSD)	BSD domain	This domain contains a distinctive -FW- motif. It is found in a family of eukaryotic transcription factors as well as a set of proteins of unknown function.	Domain
B [auth 1]	PF08567	TFIIH p62 subunit, N-terminal domain (PH_TFIIH)	TFIIH p62 subunit, N-terminal domain	The N-terminal domain of the TFIIH basal transcription factor complex p62 subunit (BTF2-p62) forms an interaction with the 3' endonuclease XPG, which is essential for activity. The 3' endonuclease XPG is a major component of the nucleotide excision ...	The N-terminal domain of the TFIIH basal transcription factor complex p62 subunit (BTF2-p62) forms an interaction with the 3' endonuclease XPG, which is essential for activity. The 3' endonuclease XPG is a major component of the nucleotide excision repair machinery. The structure of the N-terminal domain reveals that it adopts a pleckstrin homology (PH) fold [1,2]. This PH-type domain has been shown to bind to a mono-phosphorylated inositide [2].	Domain
C [auth 2]	PF03849	Transcription factor Tfb2 (Tfb2)	Transcription factor Tfb2	-	Family
C [auth 2]	PF18307	Transcription factor Tfb2 (p52) C-terminal domain (Tfb2_C)	Transcription factor Tfb2 (p52) C-terminal domain	This is the C-terminal domain of Transcription factor Tfb2 present in Saccharomyces cerevisiae. Tfb2 is referred to as p52 in humans. The interaction between p8-Tfb5 and p52-Tfb2 has a key role in the maintenance of the transcription factor TFIIH arc ...	This is the C-terminal domain of Transcription factor Tfb2 present in Saccharomyces cerevisiae. Tfb2 is referred to as p52 in humans. The interaction between p8-Tfb5 and p52-Tfb2 has a key role in the maintenance of the transcription factor TFIIH architecture and TFIIHs function in nucleotide-excision repair (NER) pathway. The C-terminal domain of Tfb2 is thought to have a crucial role in DNA repair [1].	Domain
D [auth 3]	PF17121	Zinc finger, C3HC4 type (RING finger) (zf-C3HC4_5)	Zinc finger, C3HC4 type (RING finger)	-	Domain
D [auth 3]	PF06391	CDK-activating kinase assembly factor MAT1 (MAT1)	CDK-activating kinase assembly factor MAT1	-	Family
E [auth 4]	PF03850	Transcription factor Tfb4 (Tfb4)	Transcription factor Tfb4	This family appears to be distantly related to the VWA domain.	Domain
F [auth 5]	PF06331	Transcription factor TFIIH complex subunit Tfb5 (Tfb5)	Transcription factor TFIIH complex subunit Tfb5	-	Family
G [auth 6]	PF04056	Ssl1-like (Ssl1)	Ssl1-like	-	Family
G [auth 6]	PF07975	TFIIH C1-like domain (C1_4)	TFIIH C1-like domain	The carboxyl-terminal region of TFIIH is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD ...	The carboxyl-terminal region of TFIIH is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C (Pfam:PF00130) [1].	Domain
H [auth 7]	PF04851	Type III restriction enzyme, res subunit (ResIII)	Type III restriction enzyme, res subunit	-	Family
H [auth 7]	PF16203	ERCC3/RAD25/XPB C-terminal helicase (ERCC3_RAD25_C)	ERCC3/RAD25/XPB C-terminal helicase	This is the C-terminal helicase domain of ERCC3, RAD25 and XPB helicases [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth 0]	General transcription and DNA repair factor IIH helicase subunit XPD	ATP-dependent activity, acting on DNA DNA helicase activity catalytic activity, acting on DNA 5'-3' DNA helicase activity catalytic activity, acting on a nucleic acid helicase activity catalytic activity ATP-dependent activity iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding DNA binding ATP-dependent activity, acting on DNA DNA helicase activity catalytic activity, acting on DNA 5'-3' DNA helicase activity catalytic activity, acting on a nucleic acid helicase activity catalytic activity ATP-dependent activity iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding DNA binding organic cyclic compound binding damaged DNA binding nucleic acid binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides cation binding metal ion binding	cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance metabolic process heterocycle metabolic process organic substance biosynthetic process nitrogen compound metabolic process cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance metabolic process heterocycle metabolic process organic substance biosynthetic process nitrogen compound metabolic process cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process nucleobase-containing compound biosynthetic process heterocycle biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process organic cyclic compound metabolic process biosynthetic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process metabolic process cellular process macromolecule metabolic process cellular aromatic compound metabolic process regulation of DNA recombination regulation of cellular process regulation of mitotic recombination regulation of primary metabolic process regulation of nitrogen compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological process DNA recombination biological regulation mitotic recombination regulation of cellular metabolic process DNA metabolic process regulation of macromolecule metabolic process regulation of metabolic process regulation of DNA metabolic process transcription initiation at RNA polymerase II promoter DNA-templated transcription initiation cellular response to stimulus response to stimulus cellular response to stress nucleotide-excision repair DNA damage response response to stress DNA repair positive regulation of biological process positive regulation of mitotic recombination positive regulation of cellular metabolic process positive regulation of metabolic process positive regulation of macromolecule metabolic process positive regulation of cellular process positive regulation of DNA recombination positive regulation of nucleobase-containing compound metabolic process positive regulation of DNA metabolic process positive regulation of nitrogen compound metabolic process	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex transcription factor TFIIH core complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle intracellular organelle organelle intracellular anatomical structure cytoplasm cellular anatomical entity cytosol RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex transcription factor TFIIH core complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle intracellular organelle organelle RNA polymerase II, holoenzyme membrane-enclosed lumen transferase complex intracellular organelle lumen protein kinase complex nucleoplasm transcription factor TFIIH holo complex catalytic complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen carboxy-terminal domain protein kinase complex RNA polymerase complex serine/threonine protein kinase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen nucleotide-excision repair factor 3 complex nucleotide-excision repair complex
J [auth B]	DNA-directed RNA polymerase II subunit RPB2	ribonucleoside binding binding organic cyclic compound binding nucleoside binding heterocyclic compound binding carbohydrate derivative binding small molecule binding DNA binding nucleic acid binding RNA binding mRNA binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA ribonucleoside binding binding organic cyclic compound binding nucleoside binding heterocyclic compound binding carbohydrate derivative binding small molecule binding DNA binding nucleic acid binding RNA binding mRNA binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups cation binding ion binding metal ion binding	cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance metabolic process heterocycle metabolic process organic substance biosynthetic process nitrogen compound metabolic process cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance metabolic process heterocycle metabolic process organic substance biosynthetic process nitrogen compound metabolic process cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process nucleobase-containing compound biosynthetic process heterocycle biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process organic cyclic compound metabolic process biosynthetic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process metabolic process cellular process macromolecule metabolic process cellular aromatic compound metabolic process RNA-templated transcription transcription initiation at RNA polymerase II promoter DNA-templated transcription initiation transcription elongation by RNA polymerase II DNA-templated transcription elongation	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle cytoplasmic ribonucleoprotein granule ribonucleoprotein granule intracellular non-membrane-bounded organelle supramolecular complex non-membrane-bounded organelle cytoplasmic stress granule membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle cytoplasmic ribonucleoprotein granule ribonucleoprotein granule intracellular non-membrane-bounded organelle supramolecular complex non-membrane-bounded organelle cytoplasmic stress granule RNA polymerase II, holoenzyme protein-containing complex nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen nucleoplasm RNA polymerase II, core complex catalytic complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen
K [auth D]	DNA-directed RNA polymerase II subunit RPB4	protein binding binding translation initiation factor binding nucleoside phosphate binding organic cyclic compound binding nucleotide binding heterocyclic compound binding small molecule binding	cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process organic substance metabolic process heterocycle metabolic process RNA-templated transcription organic substance biosynthetic process nitrogen compound metabolic process cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process nucleobase-containing compound biosynthetic process cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process organic substance metabolic process heterocycle metabolic process RNA-templated transcription organic substance biosynthetic process nitrogen compound metabolic process cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process nucleobase-containing compound biosynthetic process heterocycle biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process organic cyclic compound metabolic process biosynthetic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process metabolic process cellular process macromolecule metabolic process cellular aromatic compound metabolic process DNA-templated transcription transcription by RNA polymerase II transcription initiation at RNA polymerase II promoter DNA-templated transcription initiation transcription elongation by RNA polymerase II DNA-templated transcription elongation regulation of cellular process positive regulation of protein metabolic process organonitrogen compound biosynthetic process positive regulation of biological process positive regulation of translation positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process regulation of nitrogen compound metabolic process post-transcriptional regulation of gene expression positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process translational initiation protein metabolic process positive regulation of cellular process regulation of biosynthetic process regulation of biological process organonitrogen compound metabolic process regulation of translational initiation regulation of protein metabolic process biological regulation regulation of cellular metabolic process regulation of macromolecule metabolic process translation regulation of cellular biosynthetic process regulation of gene expression positive regulation of nitrogen compound metabolic process positive regulation of gene expression regulation of translation regulation of macromolecule biosynthetic process positive regulation of translational initiation regulation of metabolic process positive regulation of cellular biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process cellular catabolic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality RNA catabolic process mRNA catabolic process positive regulation of nucleobase-containing compound metabolic process negative regulation of metabolic process positive regulation of mRNA metabolic process aromatic compound catabolic process negative regulation of cellular biosynthetic process cellular nitrogen compound catabolic process nucleobase-containing compound catabolic process positive regulation of RNA metabolic process negative regulation of gene expression negative regulation of macromolecule biosynthetic process heterocycle catabolic process nucleic acid catabolic process nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay catabolic process mRNA destabilization macromolecule catabolic process regulation of mRNA catabolic process negative regulation of cellular process negative regulation of macromolecule metabolic process RNA destabilization nuclear-transcribed mRNA catabolic process regulation of catabolic process mRNA metabolic process organic cyclic compound catabolic process positive regulation of catabolic process regulation of mRNA stability positive regulation of mRNA catabolic process negative regulation of biosynthetic process regulation of RNA stability regulation of cellular catabolic process positive regulation of cellular catabolic process regulation of mRNA metabolic process organic substance catabolic process	membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle nucleoplasm RNA polymerase II, core complex catalytic complex intracellular membrane-bounded organelle membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle nucleoplasm RNA polymerase II, core complex catalytic complex intracellular membrane-bounded organelle cellular anatomical entity transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen organelle RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen RPB4-RPB7 complex cytoplasmic ribonucleoprotein granule ribonucleoprotein granule intracellular non-membrane-bounded organelle cytoplasm supramolecular complex P-body non-membrane-bounded organelle
L [auth F]	DNA-directed RNA polymerases I, II, and III subunit RPABC2	DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity RNA polymerase I activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups	cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular process cellular component organization or biogenesis cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance metabolic process heterocycle metabolic process cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis cellular process cellular component organization or biogenesis cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance metabolic process heterocycle metabolic process organic substance biosynthetic process nitrogen compound metabolic process cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process nucleobase-containing compound biosynthetic process heterocycle biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process organic cyclic compound metabolic process biosynthetic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process metabolic process macromolecule metabolic process cellular aromatic compound metabolic process transcription by RNA polymerase III ncRNA transcription tRNA metabolic process tRNA transcription tRNA transcription by RNA polymerase III ncRNA metabolic process transcription by RNA polymerase I rRNA transcription rRNA metabolic process nucleolar large rRNA transcription by RNA polymerase I DNA-templated transcription termination termination of RNA polymerase I transcription RNA-templated transcription termination of RNA polymerase III transcription transcription initiation at RNA polymerase II promoter DNA-templated transcription initiation transcription initiation at RNA polymerase III promoter transcription elongation by RNA polymerase II DNA-templated transcription elongation transcription elongation by RNA polymerase I transcription initiation at RNA polymerase I promoter	membrane-bounded organelle protein-containing complex intracellular anatomical structure RNA polymerase I complex nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle non-membrane-bounded organelle catalytic complex intracellular membrane-bounded organelle cellular anatomical entity membrane-bounded organelle protein-containing complex intracellular anatomical structure RNA polymerase I complex nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle non-membrane-bounded organelle catalytic complex intracellular membrane-bounded organelle cellular anatomical entity nucleolus transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen organelle intracellular non-membrane-bounded organelle RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen RNA polymerase II, holoenzyme nucleoplasm RNA polymerase II, core complex RNA polymerase III complex cytoplasm
M [auth G]	DNA-directed RNA polymerase II subunit RPB7	protein binding binding translation initiation factor binding RNA binding organic cyclic compound binding nucleic acid binding single-stranded RNA binding DNA binding single-stranded DNA binding	cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process organic substance metabolic process heterocycle metabolic process RNA-templated transcription organic substance biosynthetic process nitrogen compound metabolic process cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process nucleobase-containing compound biosynthetic process cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process organic substance metabolic process heterocycle metabolic process RNA-templated transcription organic substance biosynthetic process nitrogen compound metabolic process cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process nucleobase-containing compound biosynthetic process heterocycle biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process organic cyclic compound metabolic process biosynthetic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process metabolic process cellular process macromolecule metabolic process cellular aromatic compound metabolic process DNA-templated transcription transcription by RNA polymerase II transcription initiation at RNA polymerase II promoter DNA-templated transcription initiation transcription elongation by RNA polymerase II DNA-templated transcription elongation regulation of cellular process positive regulation of protein metabolic process organonitrogen compound biosynthetic process positive regulation of biological process positive regulation of translation positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process regulation of nitrogen compound metabolic process post-transcriptional regulation of gene expression positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process translational initiation protein metabolic process positive regulation of cellular process regulation of biosynthetic process regulation of biological process organonitrogen compound metabolic process regulation of translational initiation regulation of protein metabolic process biological regulation regulation of cellular metabolic process regulation of macromolecule metabolic process translation regulation of cellular biosynthetic process regulation of gene expression positive regulation of nitrogen compound metabolic process positive regulation of gene expression regulation of translation regulation of macromolecule biosynthetic process positive regulation of translational initiation regulation of metabolic process positive regulation of cellular biosynthetic process negative regulation of biological process negative regulation of cellular metabolic process cellular catabolic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality RNA catabolic process mRNA catabolic process positive regulation of nucleobase-containing compound metabolic process negative regulation of metabolic process positive regulation of mRNA metabolic process aromatic compound catabolic process negative regulation of cellular biosynthetic process cellular nitrogen compound catabolic process nucleobase-containing compound catabolic process positive regulation of RNA metabolic process negative regulation of gene expression negative regulation of macromolecule biosynthetic process heterocycle catabolic process nucleic acid catabolic process nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay catabolic process mRNA destabilization macromolecule catabolic process regulation of mRNA catabolic process negative regulation of cellular process negative regulation of macromolecule metabolic process RNA destabilization nuclear-transcribed mRNA catabolic process regulation of catabolic process mRNA metabolic process organic cyclic compound catabolic process positive regulation of catabolic process regulation of mRNA stability positive regulation of mRNA catabolic process negative regulation of biosynthetic process regulation of RNA stability regulation of cellular catabolic process positive regulation of cellular catabolic process regulation of mRNA metabolic process organic substance catabolic process positive regulation of nuclear-transcribed mRNA poly(A) tail shortening nuclear-transcribed mRNA poly(A) tail shortening regulation of nuclear-transcribed mRNA poly(A) tail shortening	membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle nucleoplasm RNA polymerase II, core complex catalytic complex intracellular membrane-bounded organelle membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen intracellular organelle nucleoplasm RNA polymerase II, core complex catalytic complex intracellular membrane-bounded organelle cellular anatomical entity transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen organelle RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen RPB4-RPB7 complex cytoplasmic ribonucleoprotein granule ribonucleoprotein granule intracellular non-membrane-bounded organelle cytoplasm supramolecular complex P-body non-membrane-bounded organelle
N	Non-template DNA	-	-	-
O [auth T]	Template DNA	-	-	-
P [auth W]	Transcription initiation factor IIE subunit alpha	basal transcription machinery binding RNA polymerase binding protein binding binding RNA polymerase II complex binding basal RNA polymerase II transcription machinery binding RNA polymerase core enzyme binding enzyme binding cation binding ion binding metal ion binding small molecule binding	protein-containing complex remodeling cellular biosynthetic process RNA metabolic process cellular component organization protein-DNA complex organization RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription open complex formation at RNA polymerase II promoter organic substance metabolic process transcription by RNA polymerase II heterocycle metabolic process organic substance biosynthetic process protein-containing complex remodeling cellular biosynthetic process RNA metabolic process cellular component organization protein-DNA complex organization RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription open complex formation at RNA polymerase II promoter organic substance metabolic process transcription by RNA polymerase II heterocycle metabolic process organic substance biosynthetic process nitrogen compound metabolic process cellular component organization or biogenesis transcription initiation at RNA polymerase II promoter protein-DNA complex remodeling DNA-templated transcription open complex formation protein-containing complex organization cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process nucleobase-containing compound biosynthetic process heterocycle biosynthetic process gene expression macromolecule biosynthetic process DNA-templated transcription initiation nucleic acid metabolic process organic cyclic compound metabolic process biosynthetic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process cellular process metabolic process macromolecule metabolic process cellular aromatic compound metabolic process	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle transcription preinitiation complex protein-containing complex protein-DNA complex RNA polymerase II transcription regulator complex RNA polymerase II, holoenzyme nucleus membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle transcription preinitiation complex protein-containing complex protein-DNA complex RNA polymerase II transcription regulator complex RNA polymerase II, holoenzyme nucleus membrane-enclosed lumen nuclear protein-containing complex transcription regulator complex transferase complex intracellular organelle lumen nucleoplasm catalytic complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen RNA polymerase complex DNA-directed RNA polymerase complex transcription factor TFIIE complex intracellular protein-containing complex nuclear lumen
Q [auth X]	Transcription initiation factor IIE subunit beta	DNA binding binding organic cyclic compound binding nucleic acid binding	cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance metabolic process heterocycle metabolic process organic substance biosynthetic process nitrogen compound metabolic process transcription initiation at RNA polymerase II promoter cellular metabolic process cellular nitrogen compound metabolic process cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance metabolic process heterocycle metabolic process organic substance biosynthetic process nitrogen compound metabolic process transcription initiation at RNA polymerase II promoter cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process nucleobase-containing compound biosynthetic process heterocycle biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process DNA-templated transcription initiation organic cyclic compound metabolic process biosynthetic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process metabolic process cellular process macromolecule metabolic process cellular aromatic compound metabolic process	transcription preinitiation complex protein-containing complex protein-DNA complex RNA polymerase II transcription regulator complex membrane-bounded organelle RNA polymerase II, holoenzyme intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transcription regulator complex transferase complex intracellular organelle lumen intracellular organelle transcription preinitiation complex protein-containing complex protein-DNA complex RNA polymerase II transcription regulator complex membrane-bounded organelle RNA polymerase II, holoenzyme intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transcription regulator complex transferase complex intracellular organelle lumen intracellular organelle nucleoplasm catalytic complex intracellular membrane-bounded organelle cellular anatomical entity transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen organelle RNA polymerase complex DNA-directed RNA polymerase complex transcription factor TFIIE complex intracellular protein-containing complex nuclear lumen
B [auth 1]	General transcription and DNA repair factor IIH subunit TFB1	phosphatidylinositol-5-phosphate binding binding phospholipid binding lipid binding phosphatidylinositol phosphate binding phosphatidylinositol binding phosphatidylinositol-3-phosphate binding	cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance metabolic process heterocycle metabolic process organic substance biosynthetic process nitrogen compound metabolic process transcription initiation at RNA polymerase II promoter cellular metabolic process cellular nitrogen compound metabolic process cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance metabolic process heterocycle metabolic process organic substance biosynthetic process nitrogen compound metabolic process transcription initiation at RNA polymerase II promoter cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process nucleobase-containing compound biosynthetic process heterocycle biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process DNA-templated transcription initiation organic cyclic compound metabolic process biosynthetic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process metabolic process cellular process macromolecule metabolic process cellular aromatic compound metabolic process cellular response to stimulus response to stimulus DNA metabolic process cellular response to stress DNA damage response response to stress DNA repair transcription by RNA polymerase I nucleotide-excision repair	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex transcription factor TFIIH core complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle intracellular organelle organelle intracellular anatomical structure cytoplasm cellular anatomical entity cytosol RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex transcription factor TFIIH core complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle intracellular organelle organelle RNA polymerase II, holoenzyme membrane-enclosed lumen transferase complex intracellular organelle lumen protein kinase complex nucleoplasm transcription factor TFIIH holo complex catalytic complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen carboxy-terminal domain protein kinase complex RNA polymerase complex serine/threonine protein kinase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen nucleotide-excision repair factor 3 complex nucleotide-excision repair complex
C [auth 2]	General transcription and DNA repair factor IIH subunit TFB2	DNA binding double-stranded DNA binding binding organic cyclic compound binding nucleic acid binding ATPase activator activity molecular function activator activity molecular function regulator activity ATPase regulator activity	cellular response to stimulus response to stimulus cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process heterocycle metabolic process cellular response to stress nucleotide-excision repair DNA damage response response to stress cellular response to stimulus response to stimulus cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process heterocycle metabolic process cellular response to stress nucleotide-excision repair DNA damage response response to stress nitrogen compound metabolic process metabolic process cellular process macromolecule metabolic process cellular aromatic compound metabolic process DNA repair cellular biosynthetic process RNA metabolic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance biosynthetic process transcription initiation at RNA polymerase II promoter nucleobase-containing compound biosynthetic process heterocycle biosynthetic process gene expression macromolecule biosynthetic process DNA-templated transcription initiation biosynthetic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process	RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription factor TFIIH core complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle organelle RNA polymerase II, holoenzyme membrane-enclosed lumen RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription factor TFIIH core complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle organelle RNA polymerase II, holoenzyme membrane-enclosed lumen transferase complex intracellular organelle lumen protein kinase complex nucleoplasm transcription factor TFIIH holo complex catalytic complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen carboxy-terminal domain protein kinase complex RNA polymerase complex serine/threonine protein kinase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen nucleotide-excision repair factor 3 complex nucleotide-excision repair complex
D [auth 3]	RNA polymerase II transcription factor B subunit 3	cyclin-dependent protein serine/threonine kinase activator activity enzyme regulator activity protein serine/threonine kinase activator activity molecular function activator activity protein kinase regulator activity kinase activator activity enzyme activator activity cyclin-dependent protein serine/threonine kinase regulator activity molecular function regulator activity protein kinase activator activity kinase regulator activity cation binding ion binding binding cyclin-dependent protein serine/threonine kinase activator activity enzyme regulator activity protein serine/threonine kinase activator activity molecular function activator activity protein kinase regulator activity kinase activator activity enzyme activator activity cyclin-dependent protein serine/threonine kinase regulator activity molecular function regulator activity protein kinase activator activity kinase regulator activity cation binding ion binding binding metal ion binding small molecule binding	cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance metabolic process heterocycle metabolic process organic substance biosynthetic process nitrogen compound metabolic process transcription initiation at RNA polymerase II promoter cellular metabolic process cellular nitrogen compound metabolic process cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance metabolic process heterocycle metabolic process organic substance biosynthetic process nitrogen compound metabolic process transcription initiation at RNA polymerase II promoter cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process nucleobase-containing compound biosynthetic process heterocycle biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process DNA-templated transcription initiation organic cyclic compound metabolic process biosynthetic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process metabolic process cellular process macromolecule metabolic process cellular aromatic compound metabolic process cellular response to stimulus response to stimulus DNA metabolic process cellular response to stress DNA damage response response to stress DNA repair nucleotide-excision repair regulation of cellular process regulation of primary metabolic process regulation of nitrogen compound metabolic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of biosynthetic process regulation of biological process biological regulation regulation of cellular metabolic process regulation of macromolecule metabolic process regulation of cellular biosynthetic process regulation of gene expression regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process	RNA polymerase II transcription regulator complex membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transcription regulator complex transferase complex intracellular organelle lumen protein kinase complex intracellular organelle nucleoplasm RNA polymerase II transcription regulator complex membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transcription regulator complex transferase complex intracellular organelle lumen protein kinase complex intracellular organelle nucleoplasm transcription factor TFIIH holo complex catalytic complex intracellular membrane-bounded organelle cellular anatomical entity transferase complex, transferring phosphorus-containing groups transcription factor TFIIK complex nuclear DNA-directed RNA polymerase complex organelle lumen carboxy-terminal domain protein kinase complex organelle RNA polymerase complex serine/threonine protein kinase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen
E [auth 4]	General transcription and DNA repair factor IIH subunit TFB4	cation binding ion binding binding metal ion binding small molecule binding	cellular response to stimulus response to stimulus cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process heterocycle metabolic process cellular response to stress nucleotide-excision repair DNA damage response response to stress cellular response to stimulus response to stimulus cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process heterocycle metabolic process cellular response to stress nucleotide-excision repair DNA damage response response to stress nitrogen compound metabolic process metabolic process cellular process macromolecule metabolic process cellular aromatic compound metabolic process DNA repair regulation of cellular process cellular biosynthetic process RNA metabolic process regulation of primary metabolic process regulation of nitrogen compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation regulation of cellular metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process heterocycle biosynthetic process gene expression macromolecule biosynthetic process regulation of cellular biosynthetic process regulation of gene expression biosynthetic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process transcription by RNA polymerase II transcription initiation at RNA polymerase II promoter DNA-templated transcription initiation	RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription factor TFIIH core complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle organelle RNA polymerase II, holoenzyme membrane-enclosed lumen RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription factor TFIIH core complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle organelle RNA polymerase II, holoenzyme membrane-enclosed lumen transferase complex intracellular organelle lumen protein kinase complex nucleoplasm transcription factor TFIIH holo complex catalytic complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen carboxy-terminal domain protein kinase complex RNA polymerase complex serine/threonine protein kinase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen nucleotide-excision repair factor 3 complex nucleotide-excision repair complex
F [auth 5]	General transcription and DNA repair factor IIH subunit TFB5	-	cellular response to stimulus response to stimulus cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process heterocycle metabolic process cellular response to stress nucleotide-excision repair DNA damage response response to stress cellular response to stimulus response to stimulus cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process heterocycle metabolic process cellular response to stress nucleotide-excision repair DNA damage response response to stress nitrogen compound metabolic process metabolic process cellular process macromolecule metabolic process cellular aromatic compound metabolic process DNA repair cellular biosynthetic process RNA metabolic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance biosynthetic process transcription initiation at RNA polymerase II promoter nucleobase-containing compound biosynthetic process heterocycle biosynthetic process gene expression macromolecule biosynthetic process DNA-templated transcription initiation biosynthetic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process cellular component organization cellular component biogenesis protein-DNA complex organization cellular component assembly protein-containing complex assembly cellular component organization or biogenesis protein-containing complex organization nucleotide-excision repair, preincision complex assembly protein-DNA complex assembly	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex transcription factor TFIIH core complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle intracellular organelle organelle intracellular anatomical structure cytoplasm cellular anatomical entity cytosol RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex transcription factor TFIIH core complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle intracellular organelle organelle RNA polymerase II, holoenzyme membrane-enclosed lumen transferase complex intracellular organelle lumen protein kinase complex nucleoplasm transcription factor TFIIH holo complex catalytic complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen carboxy-terminal domain protein kinase complex RNA polymerase complex serine/threonine protein kinase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen
G [auth 6]	General transcription and DNA repair factor IIH subunit SSL1	cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity transferase activity cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding aminoacyltransferase activity ubiquitin-like protein transferase activity catalytic activity, acting on a protein acyltransferase activity ubiquitin-like protein ligase activity ubiquitin protein ligase activity transferase activity catalytic activity ubiquitin-protein transferase activity	cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance metabolic process heterocycle metabolic process organic substance biosynthetic process nitrogen compound metabolic process transcription initiation at RNA polymerase II promoter cellular metabolic process cellular nitrogen compound metabolic process cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance metabolic process heterocycle metabolic process organic substance biosynthetic process nitrogen compound metabolic process transcription initiation at RNA polymerase II promoter cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process nucleobase-containing compound biosynthetic process heterocycle biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process DNA-templated transcription initiation organic cyclic compound metabolic process biosynthetic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process metabolic process cellular process macromolecule metabolic process cellular aromatic compound metabolic process cellular response to stimulus response to stimulus DNA metabolic process cellular response to stress nucleotide-excision repair DNA damage response response to stress DNA repair regulation of cellular process regulation of primary metabolic process regulation of nitrogen compound metabolic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of biosynthetic process regulation of biological process biological regulation regulation of cellular metabolic process regulation of macromolecule metabolic process regulation of cellular biosynthetic process regulation of gene expression regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process	RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription factor TFIIH core complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle organelle RNA polymerase II, holoenzyme membrane-enclosed lumen RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription factor TFIIH core complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle organelle RNA polymerase II, holoenzyme membrane-enclosed lumen transferase complex intracellular organelle lumen protein kinase complex nucleoplasm transcription factor TFIIH holo complex catalytic complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen carboxy-terminal domain protein kinase complex RNA polymerase complex serine/threonine protein kinase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen nucleotide-excision repair factor 3 complex nucleotide-excision repair complex
H [auth 7]	General transcription and DNA repair factor IIH helicase subunit XPB	ATP-dependent activity, acting on DNA DNA helicase activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid helicase activity catalytic activity ATP-dependent activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding ATP-dependent activity, acting on DNA DNA helicase activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid helicase activity catalytic activity ATP-dependent activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding DNA binding nucleic acid binding DNA translocase activity pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides 3'-5' DNA helicase activity	protein-containing complex remodeling cellular biosynthetic process RNA metabolic process cellular component organization protein-DNA complex organization RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription open complex formation at RNA polymerase II promoter organic substance metabolic process transcription by RNA polymerase II heterocycle metabolic process organic substance biosynthetic process protein-containing complex remodeling cellular biosynthetic process RNA metabolic process cellular component organization protein-DNA complex organization RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription open complex formation at RNA polymerase II promoter organic substance metabolic process transcription by RNA polymerase II heterocycle metabolic process organic substance biosynthetic process nitrogen compound metabolic process cellular component organization or biogenesis transcription initiation at RNA polymerase II promoter protein-DNA complex remodeling DNA-templated transcription open complex formation protein-containing complex organization cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process nucleobase-containing compound biosynthetic process heterocycle biosynthetic process gene expression macromolecule biosynthetic process DNA-templated transcription initiation nucleic acid metabolic process organic cyclic compound metabolic process biosynthetic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process cellular process metabolic process macromolecule metabolic process cellular aromatic compound metabolic process DNA duplex unwinding organelle organization DNA geometric change chromosome organization DNA conformation change regulation of DNA recombination regulation of cellular process regulation of mitotic recombination regulation of primary metabolic process regulation of nitrogen compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological process DNA recombination biological regulation mitotic recombination regulation of cellular metabolic process DNA metabolic process regulation of macromolecule metabolic process regulation of metabolic process regulation of DNA metabolic process cellular localization nitrogen compound transport nucleocytoplasmic transport transport nuclear transport mRNA transport localization mRNA export from nucleus establishment of localization in cell RNA localization nuclear export nucleobase-containing compound transport RNA transport organic substance transport nucleic acid transport poly(A)+ mRNA export from nucleus intracellular transport establishment of localization RNA export from nucleus establishment of RNA localization macromolecule localization cellular response to stimulus response to stimulus cellular response to stress nucleotide-excision repair DNA damage response response to stress DNA repair RNA polymerase II promoter clearance promoter clearance during DNA-templated transcription	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex transcription factor TFIIH core complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle intracellular organelle organelle intracellular anatomical structure cytoplasm cellular anatomical entity cytosol RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex transcription factor TFIIH core complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle intracellular organelle organelle transcription preinitiation complex protein-DNA complex RNA polymerase II, holoenzyme membrane-enclosed lumen transferase complex intracellular organelle lumen protein kinase complex nucleoplasm transcription factor TFIIH holo complex catalytic complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen carboxy-terminal domain protein kinase complex RNA polymerase complex serine/threonine protein kinase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen nucleotide-excision repair factor 3 complex nucleotide-excision repair complex
I [auth A]	DNA-directed RNA polymerase II subunit RPB1	DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups cation binding DNA binding binding organic cyclic compound binding nucleic acid binding DNA-directed 5'-3' RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups cation binding ion binding metal ion binding small molecule binding	cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance metabolic process heterocycle metabolic process organic substance biosynthetic process nitrogen compound metabolic process cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance metabolic process heterocycle metabolic process organic substance biosynthetic process nitrogen compound metabolic process cellular metabolic process cellular nitrogen compound metabolic process primary metabolic process nucleobase-containing compound biosynthetic process heterocycle biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process organic cyclic compound metabolic process biosynthetic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process metabolic process cellular process macromolecule metabolic process cellular aromatic compound metabolic process cellular response to stimulus postreplication repair response to stimulus DNA synthesis involved in DNA repair cellular response to stress response to stress DNA repair translesion synthesis DNA metabolic process DNA damage response DNA biosynthetic process RNA-templated transcription transcription initiation at RNA polymerase II promoter DNA-templated transcription initiation transcription elongation by RNA polymerase II DNA-templated transcription elongation	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle cytoplasmic ribonucleoprotein granule ribonucleoprotein granule intracellular non-membrane-bounded organelle supramolecular complex non-membrane-bounded organelle cytoplasmic stress granule membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle cytoplasmic ribonucleoprotein granule ribonucleoprotein granule intracellular non-membrane-bounded organelle supramolecular complex non-membrane-bounded organelle cytoplasmic stress granule RNA polymerase II, holoenzyme protein-containing complex nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen nucleoplasm RNA polymerase II, core complex catalytic complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth 0]	IPR010643	Helical and beta-bridge domain	Domain
A [auth 0]	IPR001945	RAD3/XPD family	Family
A [auth 0]	IPR045028	Helicase superfamily 1/2, DinG/Rad3-like	Family
A [auth 0]	IPR002464	DNA/RNA helicase, ATP-dependent, DEAH-box type, conserved site	Conserved Site
A [auth 0]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A [auth 0]	IPR042493	Bacterial type XPD DNA helicase, FeS cluster domain	Homologous Superfamily
A [auth 0]	IPR006554	Helicase-like, DEXD box c2 type	Domain
A [auth 0]	IPR006555	ATP-dependent helicase, C-terminal	Domain
A [auth 0]	IPR010614	RAD3-like helicase, DEAD	Domain
A [auth 0]	IPR014013	Helicase superfamily 1/2, ATP-binding domain, DinG/Rad3-type	Domain
A [auth 0]	IPR013020	ATP-dependent helicase Rad3/Chl1-like	Family
J [auth B]	IPR007120	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain	Domain
J [auth B]	IPR007121	RNA polymerase, beta subunit, conserved site	Conserved Site
J [auth B]	IPR007646	RNA polymerase Rpb2, domain 4	Domain
J [auth B]	IPR007647	RNA polymerase Rpb2, domain 5	Domain
J [auth B]	IPR014724	RNA polymerase Rpb2, OB-fold	Homologous Superfamily
J [auth B]	IPR007642	RNA polymerase Rpb2, domain 2	Domain
J [auth B]	IPR015712	DNA-directed RNA polymerase, subunit 2	Family
J [auth B]	IPR037033	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamily	Homologous Superfamily
J [auth B]	IPR037034	RNA polymerase Rpb2, domain 2 superfamily	Homologous Superfamily
J [auth B]	IPR007645	RNA polymerase Rpb2, domain 3	Domain
J [auth B]	IPR007644	RNA polymerase, beta subunit, protrusion	Domain
J [auth B]	IPR007641	RNA polymerase Rpb2, domain 7	Domain
K [auth D]	IPR005574	RNA polymerase subunit Rpb4/RPC9	Family
K [auth D]	IPR010997	HRDC-like superfamily	Homologous Superfamily
K [auth D]	IPR006590	RNA polymerase Rpb4/RPC9, core	Domain
K [auth D]	IPR038324	Rpb4/RPC9 superfamily	Homologous Superfamily
K [auth D]	IPR045222	DNA-directed RNA polymerase II subunit Rpb4-like	Family
L [auth F]	IPR028363	DNA-directed RNA polymerase, subunit RPB6	Family
L [auth F]	IPR006111	Archaeal Rpo6/eukaryotic RPB6 RNA polymerase subunit	Family
L [auth F]	IPR020708	DNA-directed RNA polymerase, 14-18kDa subunit, conserved site	Conserved Site
L [auth F]	IPR006110	RNA polymerase, subunit omega/Rpo6/RPB6	Family
L [auth F]	IPR036161	RPB6/omega subunit-like superfamily	Homologous Superfamily
M [auth G]	IPR003029	S1 domain	Domain
M [auth G]	IPR045113	RNA polymerase subunit Rpb7-like	Family
M [auth G]	IPR005576	RNA polymerase Rpb7-like , N-terminal	Domain
M [auth G]	IPR036898	RNA polymerase Rpb7-like, N-terminal domain superfamily	Homologous Superfamily
M [auth G]	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
P [auth W]	IPR024550	TFIIEalpha/SarR/Rpc3 HTH domain	Domain
P [auth W]	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
P [auth W]	IPR039997	Transcription factor E	Family
P [auth W]	IPR017919	Transcription factor TFE/TFIIEalpha HTH domain	Domain
P [auth W]	IPR002853	Transcription initiation factor IIE subunit alpha, N-terminal	Domain
Q [auth X]	IPR040501	TFA2, Winged helix domain 2	Domain
Q [auth X]	IPR016656	Transcription initiation factor TFIIE, beta subunit	Family
Q [auth X]	IPR003166	Transcription factor TFIIE beta subunit, DNA-binding domain	Domain
B [auth 1]	IPR013876	TFIIH p62 subunit, N-terminal	Domain
B [auth 1]	IPR035925	BSD domain superfamily	Homologous Superfamily
B [auth 1]	IPR027079	TFIIH subunit Tfb1/GTF2H1	Family
B [auth 1]	IPR011993	PH-like domain superfamily	Homologous Superfamily
B [auth 1]	IPR005607	BSD domain	Domain
C [auth 2]	IPR040662	Transcription factor Tfb2, C-terminal domain	Domain
C [auth 2]	IPR004598	Transcription factor TFIIH subunit p52/Tfb2	Family
D [auth 3]	IPR017907	Zinc finger, RING-type, conserved site	Conserved Site
D [auth 3]	IPR004575	Cdk-activating kinase assembly factor MAT1/Tfb3	Family
D [auth 3]	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
D [auth 3]	IPR015877	Cdk-activating kinase assembly factor MAT1, centre	Domain
D [auth 3]	IPR001841	Zinc finger, RING-type	Domain
E [auth 4]	IPR004600	TFIIH subunit Tfb4/GTF2H3	Family
E [auth 4]	IPR036465	von Willebrand factor A-like domain superfamily	Homologous Superfamily
F [auth 5]	IPR009400	TFIIH subunit TTDA/Tfb5	Family
F [auth 5]	IPR035935	TFB5-like superfamily	Homologous Superfamily
G [auth 6]	IPR007198	Ssl1-like	Domain
G [auth 6]	IPR012170	TFIIH subunit Ssl1/p44	Family
G [auth 6]	IPR004595	TFIIH C1-like domain	Domain
G [auth 6]	IPR013087	Zinc finger C2H2-type	Domain
G [auth 6]	IPR036465	von Willebrand factor A-like domain superfamily	Homologous Superfamily
G [auth 6]	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
G [auth 6]	IPR002035	von Willebrand factor, type A	Domain
G [auth 6]	IPR046349	C1-like domain superfamily	Homologous Superfamily
H [auth 7]	IPR032830	Helicase XPB/Ssl2, N-terminal domain	Domain
H [auth 7]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
H [auth 7]	IPR006935	Helicase/UvrB, N-terminal	Domain
H [auth 7]	IPR001650	Helicase, C-terminal domain-like	Domain
H [auth 7]	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
H [auth 7]	IPR032438	ERCC3/RAD25/XPB helicase, C-terminal domain	Domain
H [auth 7]	IPR001161	Helicase XPB/Ssl2	Family
I [auth A]	IPR007081	RNA polymerase Rpb1, domain 5	Domain
I [auth A]	IPR045867	DNA-directed RNA polymerase, subunit beta-prime	Family
I [auth A]	IPR007075	RNA polymerase Rpb1, domain 6	Domain
I [auth A]	IPR000684	RNA polymerase II, heptapeptide repeat, eukaryotic	Repeat
I [auth A]	IPR007083	RNA polymerase Rpb1, domain 4	Domain
I [auth A]	IPR044893	RNA polymerase Rpb1, clamp domain superfamily	Homologous Superfamily
I [auth A]	IPR006592	RNA polymerase, N-terminal	Domain
I [auth A]	IPR007066	RNA polymerase Rpb1, domain 3	Domain
I [auth A]	IPR007073	RNA polymerase Rpb1, domain 7	Domain
I [auth A]	IPR042102	RNA polymerase Rpb1, domain 3 superfamily	Homologous Superfamily
I [auth A]	IPR038593	RNA polymerase Rpb1, domain 7 superfamily	Homologous Superfamily
I [auth A]	IPR000722	RNA polymerase, alpha subunit	Domain
I [auth A]	IPR038120	RNA polymerase Rpb1, funnel domain superfamily	Homologous Superfamily
I [auth A]	IPR007080	RNA polymerase Rpb1, domain 1	Domain