1J2X

Crystal structure of RAP74 C-terminal domain complexed with FCP1 C-terminal peptide

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	d1j2xa1	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	C-terminal domain of the rap74 subunit of TFIIF	C-terminal domain of the rap74 subunit of TFIIF	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d1j2xa2	Artifacts	Tags	Tags	Tags	N-terminal Tags	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	Winged helix DNA-binding domain	8003444	3000034	SCOP2B (2022-06-29)
B	SCOP2 Family	FCP1 C-terminal region-like	8044673	4004073	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	FCP1 C-terminal region-like	8051971	3002078	SCOP2 (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	TFIIF_alpha_C	e1j2xA1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: TFIIF_alpha_C	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.10.10	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF05793	Transcription initiation factor IIF, alpha subunit (TFIIF-alpha) (TFIIF_alpha)	Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)	-	Family
B	PF09309	FCP1, C-terminal (FCP1_C)	FCP1, C-terminal	The C-terminal domain of FCP-1 is required for interaction with the carboxy terminal domain of RAP74. Interaction relies extensively on van der Waals contacts between hydrophobic residues situated within alpha-helices in both domains [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Transcription initiation factor IIF, alpha subunit	protein binding binding protein domain specific binding transcription factor binding basal transcription machinery binding basal RNA polymerase II transcription machinery binding general transcription initiation factor binding RNA polymerase II general transcription initiation factor binding RNA binding organic cyclic compound binding nucleic acid binding protein-containing complex binding chromatin binding promoter-specific chromatin binding protein binding binding protein domain specific binding transcription factor binding basal transcription machinery binding basal RNA polymerase II transcription machinery binding general transcription initiation factor binding RNA polymerase II general transcription initiation factor binding RNA binding organic cyclic compound binding nucleic acid binding protein-containing complex binding chromatin binding promoter-specific chromatin binding protein phosphatase binding phosphatase binding enzyme binding DNA binding general transcription initiation factor activity RNA polymerase II general transcription initiation factor activity enzyme regulator activity enzyme activator activity phosphatase activator activity molecular function activator activity phosphatase regulator activity molecular function regulator activity TFIIF-class transcription factor complex binding	regulation of protein binding regulation of molecular function negative regulation of protein binding negative regulation of binding regulation of binding biological regulation negative regulation of molecular function cellular biosynthetic process cellular metabolic process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process regulation of protein binding regulation of molecular function negative regulation of protein binding negative regulation of binding regulation of binding biological regulation negative regulation of molecular function cellular biosynthetic process cellular metabolic 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 organic cyclic compound metabolic process nucleic acid biosynthetic process transcription by RNA polymerase II organic substance metabolic process biosynthetic process organic cyclic compound biosynthetic process organic substance biosynthetic process metabolic process cellular process macromolecule metabolic process transcription initiation at RNA polymerase II promoter DNA-templated transcription initiation biological process involved in interspecies interaction between organisms response to stimulus response to other organism response to external stimulus response to external biotic stimulus response to virus response to biotic stimulus transcription elongation by RNA polymerase II DNA-templated transcription elongation regulation of cellular 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 macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of transcription by RNA polymerase II regulation of DNA-templated transcription elongation regulation of biological process positive regulation of nucleobase-containing compound metabolic process regulation of transcription elongation by RNA polymerase II regulation of cellular metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process regulation of gene expression regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process positive regulation of DNA-templated transcription positive regulation of transcription elongation by RNA polymerase II positive regulation of biological process positive regulation of cellular metabolic process positive regulation of biosynthetic process positive regulation of DNA-templated transcription, elongation positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of macromolecule metabolic process regulation of cellular biosynthetic process positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process	cell junction cellular anatomical entity 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 cell junction cellular anatomical entity 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 nucleoplasm catalytic complex intracellular membrane-bounded organelle transcription factor TFIIF complex transferase complex, transferring phosphorus-containing groups nuclear DNA-directed RNA polymerase complex organelle lumen organelle RNA polymerase complex DNA-directed RNA polymerase complex intracellular protein-containing complex nuclear lumen transcription factor TFIID complex
B	RNA polymerase II CTD phosphatase	phosphoric ester hydrolase activity phosphoprotein phosphatase activity catalytic activity, acting on a protein hydrolase activity, acting on ester bonds phosphatase activity hydrolase activity catalytic activity transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding protein binding binding DNA-binding transcription factor binding Tat protein binding protein serine/threonine phosphatase activity phosphoric ester hydrolase activity phosphoprotein phosphatase activity catalytic activity, acting on a protein hydrolase activity, acting on ester bonds phosphatase activity hydrolase activity catalytic activity transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding protein binding binding DNA-binding transcription factor binding Tat protein binding protein serine/threonine phosphatase activity myosin phosphatase activity RNA polymerase II CTD heptapeptide repeat modifying activity RNA polymerase II CTD heptapeptide repeat phosphatase activity TFIIF-class transcription factor complex binding basal transcription machinery binding protein-containing complex binding basal RNA polymerase II transcription machinery binding general transcription initiation factor binding RNA polymerase II general transcription initiation factor binding	multicellular organismal process regulation of growth system process regulation of cellular process negative regulation of muscle hypertrophy response to stimulus regulation of cardiac muscle tissue growth developmental growth regulation of system process negative regulation of biological process negative regulation of muscle cell differentiation regulation of cell differentiation muscle cell differentiation regulation of muscle hypertrophy muscle structure development multicellular organismal process regulation of growth system process regulation of cellular process negative regulation of muscle hypertrophy response to stimulus regulation of cardiac muscle tissue growth developmental growth regulation of system process negative regulation of biological process negative regulation of muscle cell differentiation regulation of cell differentiation muscle cell differentiation regulation of muscle hypertrophy muscle structure development multicellular organism development muscle adaptation negative regulation of growth cell differentiation regulation of organ growth regulation of heart growth anatomical structure development cardiac muscle tissue growth muscle tissue development cardiac cell development system development developmental process regulation of biological process heart growth negative regulation of striated muscle cell differentiation negative regulation of cell growth striated muscle hypertrophy tissue development negative regulation of developmental growth regulation of muscle cell differentiation regulation of response to stimulus striated muscle cell differentiation negative regulation of multicellular organismal process regulation of cellular component organization regulation of developmental process cellular developmental process cardiac muscle cell development cell development negative regulation of cell growth involved in cardiac muscle cell development regulation of striated muscle cell differentiation negative regulation of cardiac muscle tissue growth organ growth cell growth striated muscle tissue development cellular component organization negative regulation of organ growth muscle cell development cardiac muscle hypertrophy negative regulation of cellular process negative regulation of cell differentiation regulation of multicellular organismal process cellular component organization or biogenesis muscle hypertrophy regulation of muscle adaptation heart development regulation of multicellular organismal development regulation of developmental growth negative regulation of heart growth cardiac muscle tissue development developmental cell growth physiological muscle hypertrophy negative regulation of developmental process biological regulation growth animal organ development cardiac muscle cell differentiation regulation of cell growth involved in cardiac muscle cell development regulation of cell growth regulation of muscle system process muscle system process regulation of cardiac muscle hypertrophy cardiocyte differentiation circulatory system development cell growth involved in cardiac muscle cell development physiological cardiac muscle hypertrophy cellular process negative regulation of cardiac muscle hypertrophy cell division protein dephosphorylation organonitrogen compound metabolic process dephosphorylation cellular metabolic process primary metabolic process organic substance metabolic process macromolecule modification phosphate-containing compound metabolic process metabolic process protein metabolic process macromolecule metabolic process protein modification process phosphorus metabolic process mitotic nuclear division organelle fission cell cycle phase transition exit from mitosis mitotic cell cycle nuclear division organelle organization mitotic cell cycle process cell cycle cell cycle process mitotic cell cycle phase transition viral gene expression biological process involved in interspecies interaction between organisms modulation by host of symbiont process viral process biological process involved in interaction with symbiont viral transcription positive regulation by host of viral transcription biological process involved in symbiotic interaction transcription elongation by RNA polymerase II cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II organic substance biosynthetic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process organic cyclic compound metabolic process DNA-templated transcription elongation biosynthetic process organic cyclic compound biosynthetic process	midbody cellular anatomical entity intracellular organelle intracellular anatomical structure cytoskeleton spindle organelle intracellular non-membrane-bounded organelle spindle pole microtubule cytoskeleton non-membrane-bounded organelle spindle midzone centrosome microtubule organizing center midbody cellular anatomical entity intracellular organelle intracellular anatomical structure cytoskeleton spindle organelle intracellular non-membrane-bounded organelle spindle pole microtubule cytoskeleton non-membrane-bounded organelle spindle midzone centrosome microtubule organizing center membrane-bounded organelle intracellular membrane-bounded organelle cytoplasm nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen protein-containing complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR008851	Transcription initiation factor IIF, alpha subunit	Family
A	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
A	IPR036390	Winged helix DNA-binding domain superfamily	Homologous Superfamily
A	IPR011039	Transcription Factor IIF, Rap30/Rap74, interaction	Homologous Superfamily
B	IPR004274	FCP1 homology domain	Domain
B	IPR001357	BRCT domain	Domain
B	IPR015388	FCP1-like phosphatase, C-terminal	Domain
B	IPR036420	BRCT domain superfamily	Homologous Superfamily
B	IPR039189	CTD phosphatase Fcp1	Family
B	IPR023214	HAD superfamily	Homologous Superfamily
B	IPR011947	FCP1-like phosphatase, phosphatase domain	Domain
B	IPR036412	HAD-like superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	Pharos: Q9Y5B0	congenital cataracts-facial dysmorphism-neuropathy syndrome cataract arthrogryposis bipolar disorder chronic kidney disease hypothyroidism peripheral neuropathy attention deficit hyperactivity disorder, inattentive type intellectual disability rheumatoid arthritis autism spectrum disorder Charcot-Marie-Tooth disease endogenous depression malignant mesothelioma

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.