1RLY | pdb_00001rly

RDC-derived models of the zinc ribbon domain of human general transcription TFIIB (zinc bound structures)

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)
A	d1rlya_	Small proteins	Rubredoxin-like	Zinc beta-ribbon	Transcriptional factor domain	Transcription initiation factor TFIIB, N-terminal 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)
A	SCOP2B Superfamily	Zinc beta-ribbon	8039152	3001238	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	TF_Zn_Ribbon	e1rlyA1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: TF_Zn_Ribbon	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.20.25.10	Mainly Beta	Single Sheet	N-terminal domain of TfIIb		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF08271	TFIIB zinc-binding (Zn_Ribbon_TF)	TFIIB zinc-binding	The transcription factor TFIIB contains a zinc-binding motif near the N-terminus. This domain is involved in the interaction with RNA pol II and TFIIF and plays a crucial role in selecting the transcription initiation site. The domain adopts a zinc ...	The transcription factor TFIIB contains a zinc-binding motif near the N-terminus. This domain is involved in the interaction with RNA pol II and TFIIF and plays a crucial role in selecting the transcription initiation site. The domain adopts a zinc ribbon like structure [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Transcription initiation 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
A	IPR000812	Transcription factor TFIIB	Family
A	IPR013137	Zinc finger, TFIIB-type	Domain
A	IPR023486	Transcription factor TFIIB, conserved site	Conserved Site
A	IPR013150	Transcription factor TFIIB, cyclin-like domain	Domain
A	IPR036915	Cyclin-like superfamily	Homologous Superfamily
A	IPR013763	Cyclin-like domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q00403	colorectal cancer lung cancer pancreatic intraductal papillary-mucinous neoplasm dermatomyositis osteosarcoma plasma cell myeloma diabetes mellitus ovarian cancer

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.