7DTI | pdb_00007dti

Solution structure of the complex between RNA polymerase subunit RPB6 and TFIIH p62 PH domain

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	PH domain-like	8036958	3000134	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	RPB6/omega subunit-like	8035942	3000189	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)
B	PH_TFIIH	e7dtiB1	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: PH_TFIIH	ECOD (1.6)
A	RNA_pol_Rpb6_1	e7dtiA1	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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	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
A	PF01192	RNA polymerase Rpb6 (RNA_pol_Rpb6)	RNA polymerase Rpb6	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	General transcription factor IIH subunit 1	transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding nuclear receptor binding nuclear thyroid hormone receptor binding protein binding binding DNA-binding transcription factor binding chromatin 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 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 regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process positive regulation of metabolic process regulation of RNA metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation regulation of macromolecule metabolic process positive regulation of RNA metabolic process regulation of gene expression positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process signaling response to endogenous stimulus hormone-mediated signaling pathway cell communication cellular response to endogenous stimulus cellular response to chemical stimulus response to hormone response to chemical signal transduction cellular response to hormone stimulus nucleotide-excision repair regulation of protein modification process regulation of catalytic activity regulation of protein phosphorylation regulation of transferase activity regulation of cyclin-dependent protein serine/threonine kinase activity phosphate-containing compound metabolic process protein metabolic process phosphorus metabolic process protein modification process protein phosphorylation phosphorylation regulation of protein metabolic process regulation of protein kinase activity regulation of molecular function regulation of kinase activity regulation of protein serine/threonine kinase activity macromolecule modification regulation of phosphorylation regulation of phosphorus 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 intracellular organelle cellular anatomical structure 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 intracellular organelle cellular anatomical structure organelle RNA polymerase II, holoenzyme membrane-enclosed lumen transferase complex intracellular organelle lumen protein kinase complex nucleoplasm transcription factor TFIIH holo complex catalytic complex cyclin-dependent protein kinase holoenzyme complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen carboxy-terminal domain protein kinase complex serine/threonine protein kinase complex RNA polymerase complex nuclear cyclin-dependent protein kinase holoenzyme complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen
A	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 cytoplasm cytosol fibrillar center RNA polymerase III complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR013876	TFIIH p62 subunit, N-terminal	Domain
B	IPR035925	BSD domain superfamily	Homologous Superfamily
B	IPR027079	TFIIH subunit Tfb1/GTF2H1	Family
B	IPR011993	PH-like domain superfamily	Homologous Superfamily
B	IPR005607	BSD domain	Domain
A	IPR020708	DNA-directed RNA polymerase, 14-18kDa subunit, conserved site	Conserved Site
A	IPR028363	DNA-directed RNA polymerase, subunit RPB6	Family
A	IPR006110	RNA polymerase, subunit omega/Rpo6/RPB6	Family
A	IPR036161	RPB6/omega subunit-like superfamily	Homologous Superfamily
A	IPR006111	Archaeal Rpo6/eukaryotic RPB6 RNA polymerase subunit	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	Pharos: P32780	attention deficit hyperactivity disorder, inattentive type gastric carcinoma malignant pancreatic neoplasm peripheral neuropathy exocrine pancreatic carcinoma hepatocellular carcinoma ovarian cancer tuberculosis gastric cancer lymphoplasmacytic lymphoma peripheral nervous system disease
A	Pharos: P61218	glioblastoma age-related macular degeneration large cell medulloblastoma Malignant neoplasm of breast primitive neuroectodermal tumor Waardenburg syndrome type 2E X-linked mixed deafness with perilymphatic gusher atypical teratoid rhabdoid tumor malignant ependymoma medulloblastoma psoriasis Waardenburg syndrome type 4C malignant glioma PCWH syndrome subependymal giant cell astrocytoma glioblastoma age-related macular degeneration large cell medulloblastoma Malignant neoplasm of breast primitive neuroectodermal tumor Waardenburg syndrome type 2E X-linked mixed deafness with perilymphatic gusher atypical teratoid rhabdoid tumor malignant ependymoma medulloblastoma psoriasis Waardenburg syndrome type 4C malignant glioma PCWH syndrome subependymal giant cell astrocytoma wet macular degeneration

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.