1C9B | pdb_00001c9b

CRYSTAL STRUCTURE OF A HUMAN TBP CORE DOMAIN-HUMAN TFIIB CORE DOMAIN COMPLEX BOUND TO AN EXTENDED, MODIFIED ADENOVIRAL MAJOR LATE PROMOTER (ADMLP)

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
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
L [auth B]	d1c9bb1	Alpha and beta proteins (a+b)	TBP-like	TATA-box binding protein-like	TATA-box binding protein (TBP), C-terminal domain	TATA-box binding protein (TBP), C-terminal domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
P [auth J]	d1c9bj1	Alpha and beta proteins (a+b)	TBP-like	TATA-box binding protein-like	TATA-box binding protein (TBP), C-terminal domain	TATA-box binding protein (TBP), C-terminal domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
R [auth N]	d1c9bn1	Alpha and beta proteins (a+b)	TBP-like	TATA-box binding protein-like	TATA-box binding protein (TBP), C-terminal domain	TATA-box binding protein (TBP), C-terminal domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
T [auth R]	d1c9br1	Alpha and beta proteins (a+b)	TBP-like	TATA-box binding protein-like	TATA-box binding protein (TBP), C-terminal domain	TATA-box binding protein (TBP), C-terminal domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
N [auth F]	d1c9bf1	Alpha and beta proteins (a+b)	TBP-like	TATA-box binding protein-like	TATA-box binding protein (TBP), C-terminal domain	TATA-box binding protein (TBP), C-terminal domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
K [auth A]	d1c9ba1	All alpha proteins	Cyclin-like	Cyclin-like	Transcription factor IIB (TFIIB), core domain	Transcription factor IIB (TFIIB), core domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
M [auth E]	d1c9be1	All alpha proteins	Cyclin-like	Cyclin-like	Transcription factor IIB (TFIIB), core domain	Transcription factor IIB (TFIIB), core domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
O [auth I]	d1c9bi1	All alpha proteins	Cyclin-like	Cyclin-like	Transcription factor IIB (TFIIB), core domain	Transcription factor IIB (TFIIB), core domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
Q [auth M]	d1c9bm1	All alpha proteins	Cyclin-like	Cyclin-like	Transcription factor IIB (TFIIB), core domain	Transcription factor IIB (TFIIB), core domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
S [auth Q]	d1c9bq1	All alpha proteins	Cyclin-like	Cyclin-like	Transcription factor IIB (TFIIB), core domain	Transcription factor IIB (TFIIB), core domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
L [auth B]	SCOP2B Superfamily	TATA-box binding protein-like	8036295	3000705	SCOP2B (2022-06-29)
L [auth B]	SCOP2B Superfamily	TATA-box binding protein-like	8036293	3000705	SCOP2B (2022-06-29)
P [auth J]	SCOP2B Superfamily	TATA-box binding protein-like	8036293	3000705	SCOP2B (2022-06-29)
P [auth J]	SCOP2B Superfamily	TATA-box binding protein-like	8036295	3000705	SCOP2B (2022-06-29)
R [auth N]	SCOP2B Superfamily	TATA-box binding protein-like	8036295	3000705	SCOP2B (2022-06-29)
R [auth N]	SCOP2B Superfamily	TATA-box binding protein-like	8036293	3000705	SCOP2B (2022-06-29)
T [auth R]	SCOP2B Superfamily	TATA-box binding protein-like	8036295	3000705	SCOP2B (2022-06-29)
T [auth R]	SCOP2B Superfamily	TATA-box binding protein-like	8036293	3000705	SCOP2B (2022-06-29)
N [auth F]	SCOP2B Superfamily	TATA-box binding protein-like	8036293	3000705	SCOP2B (2022-06-29)
N [auth F]	SCOP2B Superfamily	TATA-box binding protein-like	8036295	3000705	SCOP2B (2022-06-29)
K [auth A]	SCOP2B Superfamily	Cyclin-like	8043880	3000768	SCOP2B (2022-06-29)
K [auth A]	SCOP2B Superfamily	Cyclin-like	8043882	3000768	SCOP2B (2022-06-29)
M [auth E]	SCOP2B Superfamily	Cyclin-like	8043882	3000768	SCOP2B (2022-06-29)
M [auth E]	SCOP2B Superfamily	Cyclin-like	8043880	3000768	SCOP2B (2022-06-29)
O [auth I]	SCOP2B Superfamily	Cyclin-like	8043880	3000768	SCOP2B (2022-06-29)
O [auth I]	SCOP2B Superfamily	Cyclin-like	8043882	3000768	SCOP2B (2022-06-29)
Q [auth M]	SCOP2B Superfamily	Cyclin-like	8043880	3000768	SCOP2B (2022-06-29)
Q [auth M]	SCOP2B Superfamily	Cyclin-like	8043882	3000768	SCOP2B (2022-06-29)
S [auth Q]	SCOP2B Superfamily	Cyclin-like	8043882	3000768	SCOP2B (2022-06-29)
S [auth Q]	SCOP2B Superfamily	Cyclin-like	8043880	3000768	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)
L [auth B]	TBP	e1c9bB1	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)
P [auth J]	TBP	e1c9bJ1	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)
R [auth N]	TBP	e1c9bN1	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)
T [auth R]	TBP	e1c9bR1	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)
N [auth F]	TBP	e1c9bF1	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)
K [auth A]	TFIIB	e1c9bA1	A: alpha arrays	X: HTH	H: HTH	T: Cyclin-like	F: TFIIB	ECOD (1.6)
M [auth E]	TFIIB	e1c9bE1	A: alpha arrays	X: HTH	H: HTH	T: Cyclin-like	F: TFIIB	ECOD (1.6)
O [auth I]	TFIIB	e1c9bI1	A: alpha arrays	X: HTH	H: HTH	T: Cyclin-like	F: TFIIB	ECOD (1.6)
Q [auth M]	TFIIB	e1c9bM1	A: alpha arrays	X: HTH	H: HTH	T: Cyclin-like	F: TFIIB	ECOD (1.6)
S [auth Q]	TFIIB	e1c9bQ1	A: alpha arrays	X: HTH	H: HTH	T: Cyclin-like	F: TFIIB	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
L [auth B]	3.30.310.10	Alpha Beta	2-Layer Sandwich	TATA-Binding Protein	TATA-Binding Protein	CATH (4.3.0)
P [auth J]	3.30.310.10	Alpha Beta	2-Layer Sandwich	TATA-Binding Protein	TATA-Binding Protein	CATH (4.3.0)
R [auth N]	3.30.310.10	Alpha Beta	2-Layer Sandwich	TATA-Binding Protein	TATA-Binding Protein	CATH (4.3.0)
T [auth R]	3.30.310.10	Alpha Beta	2-Layer Sandwich	TATA-Binding Protein	TATA-Binding Protein	CATH (4.3.0)
N [auth F]	3.30.310.10	Alpha Beta	2-Layer Sandwich	TATA-Binding Protein	TATA-Binding Protein	CATH (4.3.0)
K [auth A]	1.10.472.10	Mainly Alpha	Orthogonal Bundle	Cyclin A	domain 1	CATH (4.3.0)
M [auth E]	1.10.472.10	Mainly Alpha	Orthogonal Bundle	Cyclin A	domain 1	CATH (4.3.0)
O [auth I]	1.10.472.10	Mainly Alpha	Orthogonal Bundle	Cyclin A	domain 1	CATH (4.3.0)
Q [auth M]	1.10.472.10	Mainly Alpha	Orthogonal Bundle	Cyclin A	domain 1	CATH (4.3.0)
S [auth Q]	1.10.472.10	Mainly Alpha	Orthogonal Bundle	Cyclin A	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
L [auth B], N [auth F], P [auth J], R [auth N], T [auth R]	PF00352	Transcription factor TFIID (or TATA-binding protein, TBP) (TBP)	Transcription factor TFIID (or TATA-binding protein, TBP)		Domain
K [auth A], M [auth E], O [auth I], Q [auth M], S [auth Q]	PF00382	Transcription factor TFIIB repeat (TFIIB)	Transcription factor TFIIB repeat		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth C], C [auth G], E [auth K], G [auth O], I [auth S]	ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT	-	-	-
B [auth D], D [auth H], F [auth L], H [auth P], J [auth T]	ADMLP TATA-BOX DNA CONTAINING IIB RECOGNITION ELEMENT	-	-	-
L [auth B], N [auth F], P [auth J], R [auth N], T [auth R]	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 nucleobase-containing compound metabolic 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	RNA polymerase II transcription regulator complex membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transcription regulator complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm RNA polymerase II transcription regulator complex membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transcription regulator complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure 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 cytoplasm 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
K [auth A], M [auth E], O [auth I], Q [auth M], S [auth Q]	GENERAL TRANSCRIPTION FACTOR IIB	protein-lysine-acetyltransferase activity catalytic activity, acting on a protein protein N-acetyltransferase activity N-acetyltransferase activity acyltransferase activity histone H3 acetyltransferase activity transferase activity histone acetyltransferase activity acetyltransferase activity histone H3K56 acetyltransferase activity histone modifying activity acyltransferase activity, transferring groups other than amino-acyl groups catalytic activity N-acyltransferase activity protein-lysine-acetyltransferase activity catalytic activity, acting on a protein protein N-acetyltransferase activity N-acetyltransferase activity acyltransferase activity histone H3 acetyltransferase activity transferase activity histone acetyltransferase activity acetyltransferase activity histone H3K56 acetyltransferase activity histone modifying activity acyltransferase activity, transferring groups other than amino-acyl groups catalytic activity N-acyltransferase activity histone H3K122 acetyltransferase activity histone H3K9 acetyltransferase activity chromatin binding binding promoter-specific chromatin 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 histone H3K27 acetyltransferase activity DNA binding sequence-specific DNA binding double-stranded DNA binding core promoter sequence-specific DNA binding nucleic acid binding RNA polymerase II core promoter sequence-specific DNA binding RNA polymerase II transcription regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding histone H4K12 acetyltransferase activity histone H4 acetyltransferase activity RNA polymerase II-specific DNA-binding transcription factor binding nuclear receptor binding nuclear thyroid hormone receptor binding DNA-binding transcription factor binding histone H4K8 acetyltransferase activity histone H3K4 acetyltransferase activity histone H3K14 acetyltransferase activity histone H3K18 acetyltransferase activity histone H2B acetyltransferase activity histone H2BK12 acetyltransferase activity basal transcription machinery binding RNA polymerase binding RNA polymerase II complex binding basal RNA polymerase II transcription machinery binding RNA polymerase core enzyme binding enzyme binding histone H2AK9 acetyltransferase activity histone H2A acetyltransferase activity histone H2AK5 acetyltransferase activity histone H4K5 acetyltransferase activity histone H2BK5 acetyltransferase activity histone H4K16 acetyltransferase activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding histone H3K36 acetyltransferase activity histone H3K23 acetyltransferase activity	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 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 RNA polymerase II core complex assembly organelle assembly microtubule cytoskeleton organization membraneless organelle assembly spindle assembly organelle organization microtubule-based process cell cycle cytoskeleton organization chromosome segregation spindle organization cell cycle process chromosome organization sister chromatid cohesion meiotic sister chromatid cohesion viral gene expression viral process viral transcription protein acetylation macromolecule modification protein metabolic process protein modification process protein acylation DNA-templated transcriptional start site selection transcriptional start site selection at RNA polymerase II promoter regulation of molecular function positive regulation of molecular function regulation of DNA binding regulation of binding positive regulation of transcription regulatory region DNA binding regulation of transcription regulatory region DNA binding biological regulation positive regulation of core promoter binding positive regulation of binding positive regulation of DNA binding	RNA polymerase II transcription regulator complex membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transcription regulator complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm RNA polymerase II transcription regulator complex membrane-bounded organelle RNA polymerase II, holoenzyme protein-containing complex intracellular anatomical structure nucleus membrane-enclosed lumen nuclear protein-containing complex transcription regulator complex transferase complex intracellular organelle lumen intracellular organelle cellular anatomical structure 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 TFIID complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen membraneless organelle intracellular membraneless organelle chromosome germinal vesicle germ cell nucleus female germ cell nucleus cell division site transcription preinitiation complex protein-DNA complex chromosomal region kinetochore chromosome, centromeric region condensed chromosome, centromeric region supramolecular complex condensed chromosome nuclear body

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
L [auth B], N [auth F], P [auth J], R [auth N], T [auth R]	IPR030491	TATA-box binding protein, conserved site	Conserved Site
L [auth B], N [auth F], P [auth J], R [auth N], T [auth R]	IPR000814	TATA-box binding protein	Family
L [auth B], N [auth F], P [auth J], R [auth N], T [auth R]	IPR012295	TBP domain superfamily	Homologous Superfamily
L [auth B], N [auth F], P [auth J], R [auth N], T [auth R]	IPR033710	TATA-box binding protein, eukaryotic	Family
K [auth A], M [auth E], O [auth I], Q [auth M], S [auth Q]	IPR000812	Transcription factor TFIIB	Family
K [auth A], M [auth E], O [auth I], Q [auth M], S [auth Q]	IPR013137	Zinc finger, TFIIB-type	Domain
K [auth A], M [auth E], O [auth I], Q [auth M], S [auth Q]	IPR023486	Transcription factor TFIIB, conserved site	Conserved Site
K [auth A], M [auth E], O [auth I], Q [auth M], S [auth Q]	IPR013150	Transcription factor TFIIB, cyclin-like domain	Domain
K [auth A], M [auth E], O [auth I], Q [auth M], S [auth Q]	IPR036915	Cyclin-like superfamily	Homologous Superfamily
K [auth A], M [auth E], O [auth I], Q [auth M], S [auth Q]	IPR013763	Cyclin-like domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
L [auth B], N [auth F], P [auth J], R [auth N], T [auth R]	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
K [auth A], M [auth E], O [auth I], Q [auth M], S [auth Q]	Pharos: Q00403	colorectal cancer lung cancer pancreatic intraductal papillary-mucinous neoplasm dermatomyositis osteosarcoma plasma cell myeloma diabetes mellitus ovarian cancer