Annotations: 9HWG

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
T [auth d]	SCOP2B Superfamily	WD40 repeat-like	8052530	3001694	SCOP2B (2022-06-29)
T [auth d]	SCOP2B Superfamily	WD40 repeat-like	8052531	3001694	SCOP2B (2022-06-29)
T [auth d]	SCOP2B Superfamily	WD40 repeat-like	8052530	3001694	SCOP2B (2022-06-29)
T [auth d]	SCOP2B Superfamily	WD40 repeat-like	8051194	3001694	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	RPB6/omega subunit-like	8106082	3000189	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	RNA polymerase subunits	8103068	3001823	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	RBP11-like subunits of RNA polymerase	8080728	3001655	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	RNA polymerase subunit RPB10	8101287	3001213	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
D	PF10433	RSE1/DDB1/CPSF1 first beta-propeller (Beta-prop_RSE1_1st)	RSE1/DDB1/CPSF1 first beta-propeller	-	Repeat
I	PF02150	RNA polymerases M/15 Kd subunit (Zn_ribbon_RPB9)	RNA polymerases M/15 Kd subunit		Domain
I	PF01096	Transcription factor S-II (TFIIS) (Zn_ribbon_TFIIS)	Transcription factor S-II (TFIIS)		Domain
H	PF03870	RNA polymerase Rpb8 (RNA_pol_Rpb8)	RNA polymerase Rpb8	-	Family
F	PF01192	RNA polymerase Rpb6 (RNA_pol_Rpb6)	RNA polymerase Rpb6	-	Family
E	PF01191	RNA polymerase Rpb5, C-terminal domain (RNA_pol_Rpb5_C)	RNA polymerase Rpb5, C-terminal domain	The assembly domain of Rpb5 [1]. The archaeal equivalent to this domain is subunit H. Subunit H lacks the N-terminal domain.	Domain
E	PF03871	RNA polymerase Rpb5, N-terminal domain (RNA_pol_Rpb5_N)	RNA polymerase Rpb5, N-terminal domain	Rpb5 has a bipartite structure which includes a eukaryote-specific N-terminal domain and a C-terminal domain resembling the archaeal RNAP subunit H [1,2]. The N-terminal domain is involved in DNA binding and is part of the jaw module in the RNA p ...	Rpb5 has a bipartite structure which includes a eukaryote-specific N-terminal domain and a C-terminal domain resembling the archaeal RNAP subunit H [1,2]. The N-terminal domain is involved in DNA binding and is part of the jaw module in the RNA pol II structure [3]. This module is important for positioning the downstream DNA.	Domain
C	PF01193	RNA polymerase Rpb3/Rpb11 dimerisation domain (RNA_pol_L)	RNA polymerase Rpb3/Rpb11 dimerisation domain	The two eukaryotic subunits Rpb3 and Rpb11 dimerise to from a platform onto which the other subunits of the RNA polymerase assemble (D/L in archaea). The prokaryotic equivalent of the Rpb3/Rpb11 platform is the alpha-alpha dimer. The dimerisation do ...	The two eukaryotic subunits Rpb3 and Rpb11 dimerise to from a platform onto which the other subunits of the RNA polymerase assemble (D/L in archaea). The prokaryotic equivalent of the Rpb3/Rpb11 platform is the alpha-alpha dimer. The dimerisation domain of the alpha subunit/Rpb3 is interrupted by an insert domain (Pfam:PF01000). Some of the alpha subunits also contain iron-sulphur binding domains (Pfam:PF00037). Rpb11 is found as a continuous domain. Members of this family include: alpha subunit from eubacteria, alpha subunits from chloroplasts, Rpb3 subunits from eukaryotes, Rpb11 subunits from eukaryotes, RpoD subunits from archaeal spp, and RpoL subunits from archaeal spp.	Domain
C	PF01000	RNA polymerase Rpb3/RpoA insert domain (RNA_pol_A_bac)	RNA polymerase Rpb3/RpoA insert domain	Members of this family include: alpha subunit from eubacteria alpha subunits from chloroplasts Rpb3 subunits from eukaryotes RpoD subunits from archaeal	Domain
C	PF20867	UVSSA N-terminal domain (UVSSA_N)	UVSSA N-terminal domain	-	Repeat
B	PF00271	Helicase conserved C-terminal domain (Helicase_C)	Helicase conserved C-terminal domain	The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.	Domain
B	PF00176	SNF2-related domain (SNF2-rel_dom)	SNF2-related domain	This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as w ...	This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1)[1,2,3]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors.	Domain
L	PF03604	DNA directed RNA polymerase, 7 kDa subunit (Zn_ribbon_RPAB4)	DNA directed RNA polymerase, 7 kDa subunit		Domain
K	PF13656	RNA polymerase Rpb3/Rpb11 dimerisation domain (RNA_pol_L_2)	RNA polymerase Rpb3/Rpb11 dimerisation domain	The two eukaryotic subunits Rpb3 and Rpb11 dimerise to from a platform onto which the other subunits of the RNA polymerase assemble (D/L in archaea). The prokaryotic equivalent of the Rpb3/Rpb11 platform is the alpha-alpha dimer. The dimerisation do ...	The two eukaryotic subunits Rpb3 and Rpb11 dimerise to from a platform onto which the other subunits of the RNA polymerase assemble (D/L in archaea). The prokaryotic equivalent of the Rpb3/Rpb11 platform is the alpha-alpha dimer. The dimerisation domain of the alpha subunit/Rpb3 is interrupted by an insert domain (Pfam:PF01000). Some of the alpha subunits also contain iron-sulphur binding domains (Pfam:PF00037). Rpb11 is found as a continuous domain. Members of this family include: alpha subunit from eubacteria, alpha subunits from chloroplasts, Rpb3 subunits from eukaryotes, Rpb11 subunits from eukaryotes, RpoD subunits from archaeal spp, and RpoL subunits from archaeal spp. Many of the members of this family carry only the N-terminal region of Rpb11.	Domain
A	PF00400	WD domain, G-beta repeat (WD40)	WD domain, G-beta repeat	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D	RNA polymerase II subunit D	binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process DNA-templated transcription initiation nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process DNA-templated transcription initiation nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen transferase complex, transferring phosphorus-containing groups protein-containing complex membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex RNA polymerase complex DNA-directed RNA polymerase complex transferase complex intracellular protein-containing complex
G	DNA-directed RNA polymerase subunit	binding nucleic acid binding	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process DNA-templated transcription initiation nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process DNA-templated transcription initiation nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle nucleus intracellular membrane-bounded organelle transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex RNA polymerase complex DNA-directed RNA polymerase complex transferase complex intracellular protein-containing complex
I	DNA-directed RNA polymerase II subunit RPB9	binding nucleic acid binding DNA-directed 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 transition metal ion binding zinc ion binding binding nucleic acid binding DNA-directed 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 transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process DNA-templated transcription initiation RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process DNA-templated transcription initiation RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process macromolecule metabolic process transcription initiation at RNA polymerase II promoter transcription elongation by RNA polymerase II maintenance of transcriptional fidelity during transcription elongation DNA-templated transcription elongation maintenance of transcriptional fidelity during transcription elongation by RNA polymerase II cellular response to stimulus response to stimulus transcription-coupled nucleotide-excision repair DNA metabolic process cellular response to stress nucleotide-excision repair DNA damage response response to stress DNA repair	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen RNA polymerase II, holoenzyme protein-containing complex nuclear protein-containing complex transferase complex nucleoplasm RNA polymerase II, core complex catalytic complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex
P [auth T]	Template DNA	-	-	-
T [auth d]	DNA damage-binding protein 1	ubiquitin ligase complex scaffold activity protein-macromolecule adaptor activity molecular adaptor activity DNA binding binding nucleic acid binding protein-containing complex binding protein binding cullin family protein binding damaged DNA binding WD40-repeat domain binding protein domain specific binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process catabolic process proteolysis involved in protein catabolic process proteasomal protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process proteolysis metabolic process cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process catabolic process proteolysis involved in protein catabolic process proteasomal protein catabolic process primary metabolic process protein catabolic process macromolecule catabolic process proteolysis metabolic process protein metabolic process macromolecule metabolic process apoptotic process cell death programmed cell death protein ubiquitination macromolecule modification post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal regulation of biological process negative regulation of reproductive process regulation of reproductive process reproductive process biological regulation negative regulation of biological process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process ubiquitin-dependent protein catabolic process regulation of biosynthetic process epigenetic programming of gene expression regulation of cellular process epigenetic programming in the zygotic pronuclei epigenetic regulation of gene expression regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process cellular component organization regulation of gene expression biosynthetic process chromatin organization chromatin remodeling regulation of macromolecule biosynthetic process cellular component organization or biogenesis regulation of metabolic process regulation of cell cycle phase transition regulation of cell cycle process cell cycle phase transition mitotic cell cycle regulation of mitotic cell cycle phase transition regulation of mitotic cell cycle mitotic cell cycle process cell cycle regulation of cell cycle mitotic cell cycle phase transition cell cycle process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process DNA repair positive regulation of viral genome replication positive regulation of viral process positive regulation of biological process viral life cycle regulation of viral life cycle regulation of viral process viral genome replication viral process regulation of viral genome replication developmental process cellular developmental process cell development developmental process involved in reproduction programmed cell death involved in cell development cell differentiation anatomical structure development ectopic germ cell programmed cell death nucleotide-excision repair response to light stimulus cellular response to environmental stimulus cellular response to light stimulus cellular response to radiation response to UV UV-damage excision repair response to radiation response to abiotic stimulus cellular response to abiotic stimulus cellular response to UV monosaccharide metabolic process gluconeogenesis regulation of primary metabolic process positive regulation of metabolic process regulation of small molecule metabolic process positive regulation of biosynthetic process small molecule metabolic process regulation of carbohydrate metabolic process regulation of glucose metabolic process positive regulation of cellular process positive regulation of gluconeogenesis carbohydrate metabolic process small molecule biosynthetic process carbohydrate biosynthetic process hexose metabolic process monosaccharide biosynthetic process hexose biosynthetic process positive regulation of glucose metabolic process regulation of gluconeogenesis positive regulation of carbohydrate metabolic process regulation of carbohydrate biosynthetic process positive regulation of small molecule metabolic process glucose metabolic process rhythmic process circadian rhythm regulation of circadian rhythm negative regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death negative regulation of apoptotic process negative regulation of cellular process positive regulation of protein metabolic process positive regulation of macromolecule metabolic process regulation of protein metabolic process regulation of catabolic process positive regulation of protein catabolic process positive regulation of catabolic process regulation of protein catabolic process biological process involved in interspecies interaction between organisms biological process involved in interaction with symbiont biological process involved in symbiotic interaction regulation by virus of viral protein levels in host cell positive regulation by virus of viral protein levels in host cell regulation of biological quality proteasome-mediated ubiquitin-dependent protein catabolic process regulation of developmental process negative regulation of developmental process exit from host cell viral release from host cell biological process involved in interaction with host meiotic chromosome segregation sexual reproduction microtubule cytoskeleton organization membraneless organelle assembly female gamete generation meiotic cell cycle process gamete generation cellular component biogenesis cellular component assembly female meiotic nuclear division meiotic nuclear division chromosome segregation spindle organization organelle assembly organelle fission meiotic cell cycle multicellular organismal reproductive process meiotic spindle organization meiotic spindle assembly spindle assembly nuclear division organelle organization nuclear chromosome segregation microtubule-based process cytoskeleton organization spindle assembly involved in female meiosis cell surface receptor signaling pathway signaling cell communication signal transduction Wnt signaling pathway	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm intracellular organelle membraneless organelle extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm intracellular organelle membraneless organelle intracellular membraneless organelle chromosome chromosome, telomeric region chromosomal region nucleus membrane-enclosed lumen intracellular membrane-bounded organelle nucleolus intracellular organelle lumen organelle lumen nuclear lumen cullin-RING ubiquitin ligase complex protein-containing complex ubiquitin ligase complex catalytic complex Cul4-RING E3 ubiquitin ligase complex transferase complex intracellular protein-containing complex Cul4A-RING E3 ubiquitin ligase complex nucleoplasm site of double-strand break site of DNA damage Cul4B-RING E3 ubiquitin ligase complex
H	DNA-directed RNA polymerases I, II, and III subunit RPABC3	DNA-directed 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	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process	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 cellular anatomical structure membraneless organelle catalytic complex intracellular membraneless organelle 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 cellular anatomical structure membraneless organelle catalytic complex intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus transferase complex, transferring phosphorus-containing groups organelle lumen organelle RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen RNA polymerase III complex RNA polymerase II, holoenzyme nucleoplasm RNA polymerase II, core complex nuclear DNA-directed RNA polymerase complex
F	DNA-directed RNA polymerases I, II, and III subunit RPABC2	DNA binding binding nucleic acid binding DNA-directed 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	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process transcription by RNA polymerase I metabolic process cellular process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process transcription by RNA polymerase I metabolic process cellular process macromolecule metabolic process transcription by RNA polymerase II tRNA metabolic process tRNA transcription tRNA transcription by RNA polymerase III transcription by RNA polymerase III	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 cellular anatomical structure membraneless organelle catalytic complex intracellular membraneless organelle 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 cellular anatomical structure membraneless organelle catalytic complex intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus transferase complex, transferring phosphorus-containing groups organelle lumen 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 nuclear DNA-directed RNA polymerase complex fibrillar center RNA polymerase III complex
E	DNA-directed RNA polymerase II subunit E	DNA binding binding nucleic acid binding DNA-directed 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	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process macromolecule metabolic process nucleolar large rRNA transcription by RNA polymerase I transcription elongation by RNA polymerase I DNA-templated transcription elongation transcription by RNA polymerase I rRNA transcription rRNA metabolic process tRNA metabolic process tRNA transcription tRNA transcription by RNA polymerase III transcription by RNA polymerase III	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 cellular anatomical structure membraneless organelle catalytic complex intracellular membraneless organelle 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 cellular anatomical structure membraneless organelle catalytic complex intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus transferase complex, transferring phosphorus-containing groups organelle lumen 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 nuclear DNA-directed RNA polymerase complex RNA polymerase III complex
C	DNA-directed RNA polymerase II subunit RPB3	DNA binding binding nucleic acid binding DNA-directed 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 protein binding protein dimerization activity	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process macromolecule metabolic 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 cellular anatomical structure nucleoplasm RNA polymerase II, core complex catalytic complex 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 cellular anatomical structure nucleoplasm RNA polymerase II, core complex catalytic complex intracellular membrane-bounded organelle 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 cytoplasm cytosol
U [auth e]	Transcription elongation factor 1 homolog	translation factor activity translation elongation factor activity	-	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure organelle nucleus intracellular membrane-bounded organelle
B	DNA-directed RNA polymerase subunit beta	DNA binding binding nucleic acid binding DNA-directed 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 ribonucleoside binding nucleoside binding DNA binding binding nucleic acid binding DNA-directed 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 ribonucleoside binding nucleoside binding heterocyclic compound binding carbohydrate derivative binding small molecule binding hydrolase activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic process	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen transferase complex, transferring phosphorus-containing groups protein-containing complex membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex RNA polymerase complex DNA-directed RNA polymerase complex transferase complex intracellular protein-containing complex
S [auth c]	UV-stimulated scaffold protein A	chromatin-protein adaptor activity protein-macromolecule adaptor activity molecular adaptor activity 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 enzyme regulator activity RNA polymerase inhibitor activity molecular function inhibitor activity chromatin-protein adaptor activity protein-macromolecule adaptor activity molecular adaptor activity 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 enzyme regulator activity RNA polymerase inhibitor activity molecular function inhibitor activity molecular function regulator activity enzyme inhibitor activity	response to light stimulus response to stimulus response to radiation response to abiotic stimulus response to UV primary metabolic process protein ubiquitination macromolecule modification metabolic process cellular process protein metabolic process macromolecule metabolic process post-translational protein modification protein modification process response to light stimulus response to stimulus response to radiation response to abiotic stimulus response to UV primary metabolic process protein ubiquitination macromolecule modification metabolic process cellular process protein metabolic process macromolecule metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal cellular response to stimulus transcription-coupled nucleotide-excision repair DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular response to stress nucleotide-excision repair DNA damage response response to stress DNA repair	intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromosome membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromosome membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen site of DNA damage
R [auth b]	DNA excision repair protein ERCC-6	protein tyrosine kinase activator activity enzyme regulator activity kinase activator activity enzyme activator activity molecular function activator activity molecular function regulator activity protein kinase activator activity protein kinase regulator activity kinase regulator activity chromatin-protein adaptor activity protein-macromolecule adaptor activity molecular adaptor activity ATP-dependent activity, acting on DNA catalytic activity, acting on DNA protein tyrosine kinase activator activity enzyme regulator activity kinase activator activity enzyme activator activity molecular function activator activity molecular function regulator activity protein kinase activator activity protein kinase regulator activity kinase regulator activity chromatin-protein adaptor activity protein-macromolecule adaptor activity molecular adaptor activity ATP-dependent activity, acting on DNA catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid catalytic activity ATP-dependent activity DNA damage sensor activity molecular sensor activity ATP-dependent DNA damage sensor activity 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 small molecule binding DNA binding nucleic acid binding nucleic acid conformation isomerase activity isomerase activity helicase activity macromolecular conformation isomerase activity chromatin binding RNA polymerase binding protein binding enzyme binding ATP-dependent chromatin remodeler 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	response to light stimulus response to stimulus response to radiation response to abiotic stimulus response to UV response to UV-B response to X-ray response to ionizing radiation response to chemical response to toxic substance cellular response to stimulus transcription-coupled nucleotide-excision repair primary metabolic process DNA metabolic process response to light stimulus response to stimulus response to radiation response to abiotic stimulus response to UV response to UV-B response to X-ray response to ionizing radiation response to chemical response to toxic substance cellular response to stimulus transcription-coupled nucleotide-excision repair primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular response to stress nucleotide-excision repair DNA damage response response to stress metabolic process cellular process macromolecule metabolic process DNA repair regulation of cellular process positive regulation of biological process regulation of cellular response to stress regulation of primary metabolic process positive regulation of response to stimulus positive regulation of metabolic process positive regulation of DNA repair regulation of response to stress positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of biological process biological regulation regulation of macromolecule metabolic process regulation of DNA repair positive regulation of DNA metabolic process regulation of response to stimulus regulation of metabolic process regulation of DNA metabolic process pyrimidine dimer repair regulation of DNA recombination regulation of double-strand break repair positive regulation of double-strand break repair via homologous recombination recombinational repair double-strand break repair via homologous recombination positive regulation of DNA recombination double-strand break repair DNA recombination positive regulation of double-strand break repair regulation of double-strand break repair via homologous recombination signaling intracellular signal transduction cell communication JNK cascade intracellular signaling cassette MAPK cascade signal transduction base-excision repair developmental process multicellular organism growth multicellular organismal process developmental growth growth positive regulation of DNA-templated transcription RNA metabolic process positive regulation of macromolecule biosynthetic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription DNA damage checkpoint signaling regulation of cell cycle phase transition negative regulation of biological process negative regulation of cell cycle cell cycle phase transition negative regulation of cellular process negative regulation of cell cycle phase transition cell cycle regulation of cell cycle cell cycle process regulation of cell cycle process DNA integrity checkpoint signaling negative regulation of cell cycle process cell cycle checkpoint signaling signal transduction in response to DNA damage plasma membrane bounded cell projection organization cellular developmental process cell projection organization cell development neuron projection development nervous system development cellular component organization generation of neurons neurogenesis multicellular organism development neuron differentiation cell differentiation neuron development anatomical structure development cellular component organization or biogenesis system development positive regulation of DNA-templated transcription, elongation regulation of DNA-templated transcription elongation DNA-templated transcription elongation double-strand break repair via classical nonhomologous end joining double-strand break repair via nonhomologous end joining negative regulation of double-strand break repair via nonhomologous end joining negative regulation of DNA repair negative regulation of double-strand break repair negative regulation of nucleobase-containing compound metabolic process regulation of double-strand break repair via nonhomologous end joining negative regulation of macromolecule metabolic process negative regulation of response to stimulus negative regulation of metabolic process negative regulation of DNA metabolic process response to oxidative stress response to oxygen-containing compound response to superoxide response to reactive oxygen species response to oxygen radical transcription elongation by RNA polymerase II regulation of transcription elongation by RNA polymerase II regulation of DNA-templated transcription initiation transcription initiation at RNA polymerase II promoter positive regulation of transcription initiation by RNA polymerase II DNA-templated transcription initiation positive regulation of DNA-templated transcription initiation regulation of transcription initiation by RNA polymerase II cell death apoptotic signaling pathway intrinsic apoptotic signaling pathway in response to DNA damage apoptotic process intrinsic apoptotic signaling pathway programmed cell death multicellular organismal-level homeostasis homeostatic process anatomical structure homeostasis tissue homeostasis retina homeostasis photoreceptor cell maintenance single strand break repair transcription by RNA polymerase I positive regulation of transcription by RNA polymerase I regulation of transcription by RNA polymerase I response to gamma radiation positive regulation of transcription by RNA polymerase III transcription by RNA polymerase III regulation of transcription by RNA polymerase III nucleolar large rRNA transcription by RNA polymerase I transcription elongation by RNA polymerase I rRNA transcription rRNA metabolic process DNA protection chromatin organization chromatin remodeling	membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription elongation factor complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription elongation factor complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen intracellular membraneless organelle nucleolus membraneless organelle ATPase complex catalytic complex B-WICH complex chromatin chromosome SWI/SNF superfamily-type complex site of DNA damage
Q [auth a]	DNA excision repair protein ERCC-8	ubiquitin-like ligase-substrate adaptor activity enzyme-substrate adaptor activity protein-macromolecule adaptor activity molecular adaptor activity	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process double-strand break repair via classical nonhomologous end joining double-strand break repair double-strand break repair via nonhomologous end joining primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process metabolic process cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process double-strand break repair via classical nonhomologous end joining double-strand break repair double-strand break repair via nonhomologous end joining primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process metabolic process macromolecule metabolic process DNA repair response to X-ray response to ionizing radiation response to radiation response to abiotic stimulus protein autoubiquitination protein ubiquitination macromolecule modification protein metabolic process post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal transcription-coupled nucleotide-excision repair nucleotide-excision repair regulation of cellular process positive regulation of biological process regulation of cellular response to stress regulation of primary metabolic process positive regulation of response to stimulus positive regulation of metabolic process positive regulation of DNA repair regulation of response to stress positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of biological process biological regulation regulation of macromolecule metabolic process regulation of DNA repair positive regulation of DNA metabolic process regulation of response to stimulus regulation of metabolic process regulation of DNA metabolic process catabolic process proteolysis involved in protein catabolic process proteasomal protein catabolic process protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process proteolysis ubiquitin-dependent protein catabolic process protein polyubiquitination response to auditory stimulus response to mechanical stimulus response to external stimulus single strand break repair response to light stimulus response to UV regulation of transcription-coupled nucleotide-excision repair regulation of nucleotide-excision repair response to oxidative stress	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle nuclear lumen nuclear matrix somatodendritic compartment cell body membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle nuclear lumen nuclear matrix somatodendritic compartment cell body perikaryon neuronal cell body cullin-RING ubiquitin ligase complex protein-containing complex ubiquitin ligase complex catalytic complex Cul4-RING E3 ubiquitin ligase complex transferase complex intracellular protein-containing complex Cul4A-RING E3 ubiquitin ligase complex nucleoplasm nucleotide-excision repair complex nuclear protein-containing complex membraneless organelle site of DNA damage intracellular membraneless organelle chromosome
O [auth P]	RNA	-	-	-
N [auth O]	ATP-dependent DNA helicase Q5	nucleic acid conformation isomerase activity isomerase activity catalytic activity, acting on a nucleic acid helicase activity macromolecular conformation isomerase activity catalytic activity ATP-dependent activity ATP-dependent activity, acting on DNA DNA helicase activity catalytic activity, acting on DNA binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding nucleic acid conformation isomerase activity isomerase activity catalytic activity, acting on a nucleic acid helicase activity macromolecular conformation isomerase activity catalytic activity ATP-dependent activity ATP-dependent activity, acting on DNA DNA helicase activity catalytic activity, acting on DNA 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 small molecule binding DNA binding nucleic acid binding basal transcription machinery binding RNA polymerase binding protein binding RNA polymerase II complex binding basal RNA polymerase II transcription machinery binding RNA polymerase core enzyme binding enzyme binding four-way junction helicase 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 cation binding metal ion binding identical protein binding	cellular process cell cycle mitotic cell cycle nucleobase-containing compound metabolic process DNA replication metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cellular response to stimulus regulation of DNA recombination regulation of cellular process response to stimulus cellular process cell cycle mitotic cell cycle nucleobase-containing compound metabolic process DNA replication metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cellular response to stimulus regulation of DNA recombination regulation of cellular process response to stimulus regulation of double-strand break repair regulation of cellular response to stress negative regulation of biological process regulation of primary metabolic process negative regulation of DNA repair cellular response to stress response to stress regulation of response to stress negative regulation of double-strand break repair negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process recombinational repair regulation of nucleobase-containing compound metabolic process negative regulation of double-strand break repair via homologous recombination double-strand break repair via homologous recombination DNA repair negative regulation of macromolecule metabolic process double-strand break repair regulation of biological process negative regulation of response to stimulus negative regulation of metabolic process DNA recombination biological regulation regulation of macromolecule metabolic process regulation of DNA repair regulation of double-strand break repair via homologous recombination negative regulation of DNA recombination DNA damage response regulation of response to stimulus negative regulation of DNA metabolic process regulation of metabolic process regulation of DNA metabolic process replication-born double-strand break repair via sister chromatid exchange cellular response to nitrogen compound response to alcohol response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound response to alkaloid cellular response to chemical stimulus cellular response to alcohol response to camptothecin cellular response to camptothecin response to chemical cellular response to alkaloid cell division transcription elongation by RNA polymerase II RNA metabolic process negative regulation of transcription elongation by RNA polymerase II negative regulation of RNA biosynthetic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II regulation of RNA biosynthetic process regulation of biosynthetic process regulation of DNA-templated transcription elongation negative regulation of DNA-templated transcription regulation of transcription elongation by RNA polymerase II nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process negative regulation of DNA-templated transcription, elongation regulation of gene expression DNA-templated transcription elongation biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription negative regulation of RNA metabolic process mitotic DNA replication DNA-templated DNA replication nuclear DNA replication cell cycle DNA replication mitotic cell cycle process mitotic DNA-templated DNA replication cell cycle process chromosome separation chromosome segregation cellular response to xenobiotic stimulus response to xenobiotic stimulus	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol transcription preinitiation complex protein-containing complex protein-DNA complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm cellular anatomical structure intracellular anatomical structure cytoplasm cytosol transcription preinitiation complex protein-containing complex protein-DNA complex membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen membraneless organelle intracellular membraneless organelle chromosome replication fork
M [auth N]	Non-template DNA	-	-	-
L	RNA polymerase II, I and III subunit K	DNA binding binding nucleic acid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity DNA binding binding nucleic acid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding DNA-directed 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	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process macromolecule metabolic process	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 cellular anatomical structure membraneless organelle catalytic complex intracellular membraneless organelle 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 cellular anatomical structure membraneless organelle catalytic complex intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus transferase complex, transferring phosphorus-containing groups organelle lumen organelle RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen RNA polymerase III complex RNA polymerase II, holoenzyme nucleoplasm RNA polymerase II, core complex nuclear DNA-directed RNA polymerase complex
K	DNA-directed RNA polymerase II subunit RPB11-a	DNA binding binding nucleic acid binding protein binding protein dimerization activity DNA-directed 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	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process macromolecule metabolic 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 cellular anatomical structure nucleoplasm RNA polymerase II, core complex catalytic complex 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 cellular anatomical structure nucleoplasm RNA polymerase II, core complex catalytic complex intracellular membrane-bounded organelle 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
J	DNA-directed RNA polymerases I, II, and III subunit RPABC5	DNA binding binding nucleic acid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding DNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity DNA binding binding nucleic acid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding DNA-directed 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	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process cellular process macromolecule metabolic 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 cellular anatomical structure nucleoplasm RNA polymerase II, core complex catalytic complex 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 cellular anatomical structure nucleoplasm RNA polymerase II, core complex catalytic complex intracellular membrane-bounded organelle 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
A	DNA-directed RNA polymerase subunit	DNA binding binding nucleic acid binding DNA-directed 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 hydrolase activity cation binding DNA binding binding nucleic acid binding DNA-directed 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 hydrolase activity cation binding ion binding metal ion binding small molecule binding	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process cellular process macromolecule metabolic process	intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromosome cytoplasm membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromosome cytoplasm membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen transferase complex, transferring phosphorus-containing groups protein-containing complex catalytic complex RNA polymerase complex DNA-directed RNA polymerase complex transferase complex intracellular protein-containing complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D	IPR005574	RNA polymerase subunit Rpb4/RPC9	Family
D	IPR010997	HRDC-like superfamily	Homologous Superfamily
D	IPR006590	RNA polymerase Rpb4/RPC9, core	Domain
D	IPR038324	Rpb4/RPC9 superfamily	Homologous Superfamily
D	IPR045222	DNA-directed RNA polymerase II subunit Rpb4-like	Family
G	IPR036898	RNA polymerase Rpb7-like, N-terminal domain superfamily	Homologous Superfamily
G	IPR003029	S1 domain	Domain
G	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
G	IPR045113	RNA polymerase subunit Rpb7-like	Family
G	IPR005576	RNA polymerase Rpb7-like , N-terminal	Domain
I	IPR001529	DNA-directed RNA polymerase II subunit RPB9-like, zinc ribbon	Domain
I	IPR012164	DNA-directed RNA polymerase subunit/transcription factor S	Family
I	IPR001222	Zinc finger, TFIIS-type	Domain
I	IPR034012	Pol II subunit B9, C-terminal zinc ribbon	Domain
I	IPR019761	DNA-directed RNA polymerase M, 15kDa subunit, conserved site	Conserved Site
T [auth d]	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
T [auth d]	IPR004871	RSE1/DDB1/CPSF1, C-terminal	Domain
T [auth d]	IPR050358	RSE1/DDB1/CPSF1	Family
T [auth d]	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
T [auth d]	IPR018846	RSE1/DDB1/CPSF1, first beta-propeller	Domain
H	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
H	IPR005570	DNA-directed RNA polymerases I, II, and III subunit RPABC3	Family
F	IPR020708	DNA-directed RNA polymerase, 14-18kDa subunit, conserved site	Conserved Site
F	IPR028363	DNA-directed RNA polymerase, subunit RPB6	Family
F	IPR006110	RNA polymerase, subunit omega/Rpo6/RPB6	Family
F	IPR036161	RPB6/omega subunit-like superfamily	Homologous Superfamily
F	IPR006111	Archaeal Rpo6/eukaryotic RPB6 RNA polymerase subunit	Family
E	IPR014381	DNA-directed RNA polymerase subunit Rpo5/Rpb5	Family
E	IPR036710	RNA polymerase Rpb5, N-terminal domain superfamily	Homologous Superfamily
E	IPR035913	RPB5-like RNA polymerase subunit superfamily	Homologous Superfamily
E	IPR000783	RNA polymerase, subunit H/Rpb5 C-terminal	Domain
E	IPR020608	RNA polymerase, subunit H/Rpb5, conserved site	Conserved Site
E	IPR005571	RNA polymerase, Rpb5, N-terminal	Domain
C	IPR011262	DNA-directed RNA polymerase, insert domain	Domain
C	IPR011263	DNA-directed RNA polymerase, RpoA/D/Rpb3-type	Domain
C	IPR050518	Archaeal Rpo3/Eukaryotic RPB3 RNA Polymerase Subunit	Family
C	IPR022842	DNA-directed RNA polymerase subunit Rpo3/Rpb3/RPAC1	Family
C	IPR036643	DNA-directed RNA polymerase, insert domain superfamily	Homologous Superfamily
C	IPR001514	DNA-directed RNA polymerase, 30-40kDa subunit, conserved site	Conserved Site
C	IPR036603	RNA polymerase, RBP11-like subunit	Homologous Superfamily
U [auth e]	IPR007808	Transcription elongation factor 1	Family
U [auth e]	IPR038567	Transcription elongation factor 1 superfamily	Homologous Superfamily
B	IPR007642	RNA polymerase Rpb2, domain 2	Domain
B	IPR015712	DNA-directed RNA polymerase, subunit 2	Family
B	IPR037033	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamily	Homologous Superfamily
B	IPR037034	RNA polymerase Rpb2, domain 2 superfamily	Homologous Superfamily
B	IPR007120	DNA-directed RNA polymerase, subunit 2, hybrid-binding domain	Domain
B	IPR007121	RNA polymerase, beta subunit, conserved site	Conserved Site
B	IPR007645	RNA polymerase Rpb2, domain 3	Domain
B	IPR007646	RNA polymerase Rpb2, domain 4	Domain
B	IPR007647	RNA polymerase Rpb2, domain 5	Domain
B	IPR014724	RNA polymerase Rpb2, OB-fold	Homologous Superfamily
B	IPR007644	RNA polymerase, beta subunit, protrusion	Domain
B	IPR007641	RNA polymerase Rpb2, domain 7	Domain
S [auth c]	IPR018610	UV-stimulated scaffold protein A	Family
S [auth c]	IPR008942	ENTH/VHS	Homologous Superfamily
S [auth c]	IPR049408	UV-stimulated scaffold protein A, N-terminal alpha-solenoid repeats	Repeat
S [auth c]	IPR049431	UV-stimulated scaffold protein A, C-terminal domain	Domain
R [auth b]	IPR049730	SNF2/RAD5-like, C-terminal helicase domain	Domain
R [auth b]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
R [auth b]	IPR001650	Helicase, C-terminal domain-like	Domain
R [auth b]	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
R [auth b]	IPR000330	SNF2, N-terminal	Domain
R [auth b]	IPR050496	SNF2/RAD54 Helicase and DNA Repair	Family
R [auth b]	IPR038718	SNF2-like, N-terminal domain superfamily	Homologous Superfamily
Q [auth a]	IPR019775	WD40 repeat, conserved site	Conserved Site
Q [auth a]	IPR020472	PAC1/LIS1-like, WD-40 repeat	Repeat
Q [auth a]	IPR042238	DNA excision repair protein Rad28/ERCC8/Ckn1/ATCSA-1	Family
Q [auth a]	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
Q [auth a]	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
Q [auth a]	IPR001680	WD40 repeat	Repeat
N [auth O]	IPR032284	ATP-dependent DNA helicase RecQ, zinc-binding domain	Domain
N [auth O]	IPR002464	DNA/RNA helicase, ATP-dependent, DEAH-box type, conserved site	Conserved Site
N [auth O]	IPR011545	DEAD/DEAH-box helicase domain	Domain
N [auth O]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
N [auth O]	IPR001650	Helicase, C-terminal domain-like	Domain
N [auth O]	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
N [auth O]	IPR010716	RecQ helicase-like 5	Domain
N [auth O]	IPR013257	Set2 Rpb1 interacting domain	Domain
N [auth O]	IPR004589	DNA helicase, ATP-dependent, RecQ type	Family
L	IPR006591	RNA polymerase archaeal subunit P/eukaryotic subunit RPABC4	Family
L	IPR029040	RNA polymerase subunit RPABC4/transcription elongation factor Spt4	Homologous Superfamily
L	IPR039747	DNA-directed RNA polymerases I, II, and III subunit RPABC4	Family
K	IPR022905	DNA-directed RNA polymerase subunit Rpo11-like	Family
K	IPR009025	DNA-directed RNA polymerase, RBP11-like dimerisation domain	Domain
K	IPR036603	RNA polymerase, RBP11-like subunit	Homologous Superfamily
K	IPR008193	DNA-directed RNA polymerase Rpb11, 13-16kDa subunit, conserved site	Conserved Site
K	IPR037685	RNA polymerase RBP11	Family
J	IPR023580	RNA polymerase subunit RPB10	Homologous Superfamily
J	IPR020789	RNA polymerases, subunit N, zinc binding site	Binding Site
J	IPR000268	DNA-directed RNA polymerase subunit RPABC5/Rpb10	Family
A	IPR007066	RNA polymerase Rpb1, domain 3	Domain
A	IPR007081	RNA polymerase Rpb1, domain 5	Domain
A	IPR007073	RNA polymerase Rpb1, domain 7	Domain
A	IPR045867	DNA-directed RNA polymerase, subunit beta-prime	Family
A	IPR042102	RNA polymerase Rpb1, domain 3 superfamily	Homologous Superfamily
A	IPR007075	RNA polymerase Rpb1, domain 6	Domain
A	IPR000684	RNA polymerase II, heptapeptide repeat, eukaryotic	Repeat
A	IPR007083	RNA polymerase Rpb1, domain 4	Domain
A	IPR038593	RNA polymerase Rpb1, domain 7 superfamily	Homologous Superfamily
A	IPR000722	RNA polymerase, alpha subunit	Domain
A	IPR044893	RNA polymerase Rpb1, clamp domain superfamily	Homologous Superfamily
A	IPR038120	RNA polymerase Rpb1, funnel domain superfamily	Homologous Superfamily
A	IPR006592	RNA polymerase, N-terminal	Domain
A	IPR007080	RNA polymerase Rpb1, domain 1	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
T [auth d]	Pharos: Q16531	Disease Exacerbation gastric cancer lung cancer xeroderma pigmentosum gastric neoplasm drug-induced liver injury hereditary diffuse gastric adenocarcinoma psoriasis
S [auth c]	Pharos: Q2YD98	UV-sensitive syndrome UV-sensitive syndrome 3 astrocytic tumor hydroa vacciniforme malignant ependymoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma Pick disease xeroderma pigmentosum group G attention deficit hyperactivity disorder, inattentive type intellectual disability medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm pituitary cancer UV-sensitive syndrome UV-sensitive syndrome 3 astrocytic tumor hydroa vacciniforme malignant ependymoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma Pick disease xeroderma pigmentosum group G attention deficit hyperactivity disorder, inattentive type intellectual disability medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm pituitary cancer UV-sensitive syndrome 1 Cockayne syndrome juvenile dermatomyositis oligodendroglioma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia primitive neuroectodermal tumor
R [auth b]	Pharos: Q03468	Cockayne syndrome UV-sensitive syndrome de Sanctis-Cacchione syndrome age-related macular degeneration age related macular degeneration 5 cerebrooculofacioskeletal syndrome 1 Cockayne syndrome type 2 microcephaly cataract hearing loss disorder intellectual disability premature aging syndrome COFS syndrome Psychomotor Disorders UV-sensitive syndrome 1 Cockayne syndrome UV-sensitive syndrome de Sanctis-Cacchione syndrome age-related macular degeneration age related macular degeneration 5 cerebrooculofacioskeletal syndrome 1 Cockayne syndrome type 2 microcephaly cataract hearing loss disorder intellectual disability premature aging syndrome COFS syndrome Psychomotor Disorders UV-sensitive syndrome 1 microphthalmia xeroderma pigmentosum arthrogryposis premature ovarian failure 11 retinal degeneration lung benign neoplasm macular degeneration arthrogryposis syndrome microlissencephaly ovarian carcinoma genetic endocrine growth disease Hodgkins lymphoma lung cancer malignant mesothelioma osteogenesis imperfecta ovarian neoplasm premature menopause colorectal cancer primary ovarian failure tuberculosis hydroa vacciniforme leukodystrophy osteosarcoma Cockayne syndrome type 1 distal arthrogryposis
Q [auth a]	Pharos: Q13216	Cockayne syndrome UV-sensitive syndrome UV-sensitive syndrome 2 Cockayne syndrome type 1 arthrogryposis Cockayne Syndrome, Type 3 intellectual disability osteogenesis imperfecta attention deficit hyperactivity disorder, inattentive type leukodystrophy osteosarcoma primitive neuroectodermal tumor cataract Cockayne syndrome type 2 hydroa vacciniforme Cockayne syndrome UV-sensitive syndrome UV-sensitive syndrome 2 Cockayne syndrome type 1 arthrogryposis Cockayne Syndrome, Type 3 intellectual disability osteogenesis imperfecta attention deficit hyperactivity disorder, inattentive type leukodystrophy osteosarcoma primitive neuroectodermal tumor cataract Cockayne syndrome type 2 hydroa vacciniforme medulloblastoma pituitary cancer
N [auth O]	Pharos: O94762	Bloom syndrome ovarian cancer spina bifida malignant mesothelioma pancreatic intraductal papillary-mucinous neoplasm Werner syndrome osteosarcoma Rothmund-Thomson syndrome