5N9G | pdb_00005n9g

TFIIIB -TBP/Brf2/DNA and SANT domain of Bdp1-

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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	TATA-box binding protein-like	8036295	3000705	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	TATA-box binding protein-like	8036293	3000705	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	TATA-box binding protein-like	8036293	3000705	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	TATA-box binding protein-like	8036295	3000705	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	KOG1598	e5n9gA2	A: alpha arrays	X: HTH	H: HTH	T: Cyclin-like	F: KOG1598	ECOD (1.6)
A	TFIIB	e5n9gA1	A: alpha arrays	X: HTH	H: HTH	T: Cyclin-like	F: TFIIB	ECOD (1.6)
B	TBP	e5n9gB2	A: a+b two layers	X: TBP-like	H: TATA-box binding protein-like (From Topology)	T: TATA-box binding protein-like	F: TBP	ECOD (1.6)
G	TBP	e5n9gG2	A: a+b two layers	X: TBP-like	H: TATA-box binding protein-like (From Topology)	T: TATA-box binding protein-like	F: TBP	ECOD (1.6)
H	Myb_DNA-binding_3	e5n9gH1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: Myb_DNA-binding_3	ECOD (1.6)
C	Myb_DNA-binding_3	e5n9gC1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: Myb_DNA-binding_3	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.472.10	Mainly Alpha	Orthogonal Bundle	Cyclin A	domain 1	CATH (4.3.0)
F	1.10.472.10	Mainly Alpha	Orthogonal Bundle	Cyclin A	domain 1	CATH (4.3.0)
B	3.30.310.10	Alpha Beta	2-Layer Sandwich	TATA-Binding Protein	TATA-Binding Protein	CATH (4.3.0)
G	3.30.310.10	Alpha Beta	2-Layer Sandwich	TATA-Binding Protein	TATA-Binding Protein	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, F	PF21886	BRF2-like, C-terminal cyclin repeat (BRF2-like_C_cyclin_rpt)	BRF2-like, C-terminal cyclin repeat	This domain is found in human Transcription factor IIIB 50 kDa subunit (BRF2) and similar sequences mainly found in eukaryotes. BRF2 is a general activator of RNA polymerase III transcription. This protein consists of an N-terminal zinc ribbon (Pfam: ...	This domain is found in human Transcription factor IIIB 50 kDa subunit (BRF2) and similar sequences mainly found in eukaryotes. BRF2 is a general activator of RNA polymerase III transcription. This protein consists of an N-terminal zinc ribbon (Pfam:PF08271), a core domain consisting of two cyclin fold imperfect repeats and a C-terminal domain. This entry represents the second or C-terminal cyclin repeat [1-3].	Domain
B, G	PF00352	Transcription factor TFIID (or TATA-binding protein, TBP) (TBP)	Transcription factor TFIID (or TATA-binding protein, TBP)		Domain
C, H	PF15963	Myb DNA-binding like (Myb_DNA-bind_7)	Myb DNA-binding like		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, F	Transcription factor IIIB 50 kDa subunit	RNA polymerase III type 3 promoter sequence-specific DNA binding DNA binding sequence-specific DNA binding RNA polymerase III transcription regulatory region sequence-specific DNA binding binding double-stranded DNA binding nucleic acid binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding RNA polymerase III cis-regulatory region sequence-specific DNA binding transcription regulatory region nucleic acid binding transcription factor binding protein binding RNA polymerase III type 3 promoter sequence-specific DNA binding DNA binding sequence-specific DNA binding RNA polymerase III transcription regulatory region sequence-specific DNA binding binding double-stranded DNA binding nucleic acid binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding RNA polymerase III cis-regulatory region sequence-specific DNA binding transcription regulatory region nucleic acid binding transcription factor binding protein binding TBP-class protein binding general transcription initiation factor binding general transcription initiation factor activity RNA polymerase II general transcription initiation factor activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	regulation of cellular process RNA metabolic process regulation of primary metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process transcription by RNA polymerase III regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase III regulation of biological process regulation of cellular process RNA metabolic process regulation of primary metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process transcription by RNA polymerase III regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase III 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 metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process transcription preinitiation complex assembly cellular component organization cellular component biogenesis protein-DNA complex organization cellular component assembly protein-containing complex assembly cellular component organization or biogenesis protein-containing complex organization protein-DNA complex assembly DNA-templated transcription initiation cellular response to stimulus response to oxidative stress cellular response to chemical stimulus response to stimulus cellular response to stress response to stress response to chemical cellular response to oxidative stress cellular response to chemical stress	transcription preinitiation complex protein-containing complex protein-DNA 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 transcription preinitiation complex protein-containing complex protein-DNA 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 RNA polymerase III transcription regulator complex transcription factor TFIIIB complex transcription regulator complex
B, G	TATA-box-binding protein	transcription factor binding basal transcription machinery binding protein binding binding basal RNA polymerase II transcription machinery binding general transcription initiation factor binding RNA polymerase II general transcription initiation factor binding TFIIB-class transcription factor binding DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding double-stranded DNA binding nucleic acid binding transcription factor binding basal transcription machinery binding protein binding binding basal RNA polymerase II transcription machinery binding general transcription initiation factor binding RNA polymerase II general transcription initiation factor binding TFIIB-class transcription factor binding DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding double-stranded DNA binding nucleic acid binding transcription regulatory region nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding RNA polymerase II cis-regulatory region sequence-specific DNA binding core promoter sequence-specific DNA binding RNA polymerase I core promoter sequence-specific DNA binding RNA polymerase I transcription regulatory region sequence-specific DNA binding RNA polymerase III general transcription initiation factor activity general transcription initiation factor activity DNA-binding transcription factor binding RNA polymerase II general transcription initiation factor activity RNA polymerase II core promoter sequence-specific DNA binding RNA polymerase II-specific DNA-binding transcription factor binding signaling receptor binding aryl hydrocarbon receptor binding enzyme binding	developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation transcription preinitiation complex assembly RNA metabolic process cellular component organization cellular component biogenesis protein-DNA complex organization RNA biosynthetic process developmental process spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation transcription preinitiation complex assembly RNA metabolic process cellular component organization cellular component biogenesis protein-DNA complex organization RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process cellular component assembly transcription by RNA polymerase II protein-containing complex assembly cellular component organization or biogenesis transcription initiation at RNA polymerase II promoter protein-containing complex organization protein-DNA complex assembly primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process DNA-templated transcription initiation nucleic acid metabolic process biosynthetic process RNA polymerase II preinitiation complex assembly cellular process metabolic process macromolecule metabolic process 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 DNA-templated transcription initiation 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 transcription by RNA polymerase II regulation of biological process positive regulation of transcription initiation by RNA polymerase II biological regulation regulation of macromolecule metabolic process positive regulation of transcription by RNA polymerase II positive regulation of DNA-templated transcription initiation positive regulation of RNA metabolic process regulation of gene expression positive regulation of RNA biosynthetic process regulation of transcription initiation by RNA polymerase II regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process mRNA transcription by RNA polymerase II mRNA transcription mRNA metabolic process transcription by RNA polymerase III	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol RNA polymerase II transcription regulator complex membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex nucleus membrane-enclosed lumen nuclear protein-containing complex transcription regulator complex transferase complex intracellular organelle lumen cellular anatomical structure intracellular anatomical structure cytoplasm cytosol RNA polymerase II transcription regulator complex membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex nucleus membrane-enclosed lumen nuclear protein-containing complex transcription regulator complex transferase complex intracellular organelle lumen intracellular organelle nucleoplasm catalytic complex intracellular membrane-bounded organelle transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen organelle RNA polymerase complex transcription factor TFIIA complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen transcription factor TFIID complex membraneless organelle intracellular membraneless organelle chromatin chromosome pronucleus male pronucleus female pronucleus RNA polymerase transcription factor SL1 complex nucleolus RNA polymerase I transcription regulator complex euchromatin germ cell nucleus female germ cell nucleus male germ cell nucleus
E, J	DNA/RNA (25-MER)	-	-	-
D, I	DNA/RNA (27-MER)	-	-	-
C, H	Transcription factor TFIIIB component B'' homolog	transcription factor binding TFIIIC-class transcription factor complex binding protein binding binding RNA polymerase III general transcription initiation factor binding general transcription initiation factor binding	transcription preinitiation complex assembly RNA metabolic process RNA polymerase III preinitiation complex assembly RNA biosynthetic process nucleobase-containing compound metabolic process cellular component organization cellular component biogenesis protein-DNA complex organization DNA-templated transcription nucleic acid biosynthetic process cellular component assembly protein-containing complex assembly cellular component organization or biogenesis transcription initiation at RNA polymerase III promoter transcription preinitiation complex assembly RNA metabolic process RNA polymerase III preinitiation complex assembly RNA biosynthetic process nucleobase-containing compound metabolic process cellular component organization cellular component biogenesis protein-DNA complex organization DNA-templated transcription nucleic acid biosynthetic process cellular component assembly protein-containing complex assembly cellular component organization or biogenesis transcription initiation at RNA polymerase III promoter transcription by RNA polymerase III protein-containing complex organization primary metabolic process protein-DNA complex assembly nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process DNA-templated transcription initiation 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 RNA polymerase III transcription regulator complex 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 RNA polymerase III transcription regulator complex protein-containing complex transcription factor TFIIIB complex transcription regulator complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, F	IPR000812	Transcription factor TFIIB	Family
A, F	IPR013137	Zinc finger, TFIIB-type	Domain
A, F	IPR054078	BRF2-like, C-terminal	Domain
A, F	IPR036915	Cyclin-like superfamily	Homologous Superfamily
B, G	IPR030491	TATA-box binding protein, conserved site	Conserved Site
B, G	IPR000814	TATA-box binding protein	Family
B, G	IPR012295	TBP domain superfamily	Homologous Superfamily
B, G	IPR033710	TATA-box binding protein, eukaryotic	Family
C, H	IPR009057	Homedomain-like superfamily	Homologous Superfamily
C, H	IPR039467	Transcription factor TFIIIB component B'', Myb domain	Domain
C, H	IPR001005	SANT/Myb domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B, G	Pharos: P20226	spinocerebellar ataxia type 17 autosomal dominant cerebellar ataxia late-onset Parkinson disease Parkinson disease acute myeloid leukemia hereditary ataxia malignant mesothelioma osteosarcoma psoriasis Ataxias, Hereditary intellectual disability medulloblastoma ovarian cancer schizophrenia neurodegenerative disease
C, H	Pharos: A6H8Y1	nonsyndromic genetic deafness deafness, autosomal recessive myopathy Pick disease intellectual disability progressive supranuclear palsy juvenile dermatomyositis osteosarcoma psoriasis

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.