2K2U | pdb_00002k2u

NMR Structure of the complex between Tfb1 subunit of TFIIH and the activation domain of VP16

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d2k2ua_	All beta proteins	PH domain-like barrel	PH domain-like	TFIIH domain	RNA polymerase II transcription factor B 73 kDa, TFB1	Baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2 Family	Activation domain of VP16	8047275	4005542	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Activation domain of VP16	8054039	3002269	SCOP2 (2022-06-29)
A	SCOP2B Superfamily	PH domain-like	8034115	3000134	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	PH_TFIIH	e2k2uA1	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: PH_TFIIH	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF12149	Herpes simplex virus virion protein 16 C terminal (HSV_VP16_C)	Herpes simplex virus virion protein 16 C terminal	This domain is found in viruses, and is about 30 amino acids in length. It is found in association with Pfam:PF02232. This domain is the C terminal of the HSV virion protein 16. This protein is a transcription promoter. The C terminal domain is the c ...	This domain is found in viruses, and is about 30 amino acids in length. It is found in association with Pfam:PF02232. This domain is the C terminal of the HSV virion protein 16. This protein is a transcription promoter. The C terminal domain is the carboxyl subdomain of the acidic transcriptional activation domain. The protein binds to DNA binding proteins to carry out its function. Such proteins include TATA binding protein, CBP, TBP-binding protein, etc.	Domain
A	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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	Alpha trans-inducing protein	DNA binding binding nucleic acid binding molecular function activator activity molecular function regulator activity molecular adaptor activity	viral gene expression DNA-templated viral transcription viral process viral transcription regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process viral gene expression DNA-templated viral transcription viral process viral transcription regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process cellular process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process	host intracellular membrane-bounded organelle host cellular component host intracellular part cellular anatomical structure host cell part host intracellular region host cell nucleus host intracellular organelle virion component viral tegument
A	RNA polymerase II transcription factor B subunit 1	phosphatidylinositol-5-phosphate binding binding phospholipid binding lipid binding phosphatidylinositol phosphate binding phosphatidylinositol binding phosphatidylinositol-3-phosphate 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 nucleotide-excision repair	cellular anatomical structure intracellular anatomical structure cytoplasm 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 cellular anatomical structure intracellular anatomical structure cytoplasm 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 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 nucleotide-excision repair factor 3 complex nucleotide-excision repair complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR036538	Alpha trans-inducing (Alpha-TIF) superfamily	Homologous Superfamily
B	IPR021051	Herpes simplex virus, Tegument protein VP16, C-terminal	Domain
B	IPR003174	Alpha trans-inducing protein (Alpha-TIF)	Family
A	IPR013876	TFIIH p62 subunit, N-terminal	Domain
A	IPR035925	BSD domain superfamily	Homologous Superfamily
A	IPR027079	TFIIH subunit Tfb1/GTF2H1	Family
A	IPR011993	PH-like domain superfamily	Homologous Superfamily
A	IPR005607	BSD domain	Domain

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.