2W2H

Structural basis of transcription activation by the Cyclin T1-Tat-TAR RNA complex from EIAV

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF00134	e2w2hA1	A: alpha arrays	X: HTH	H: HTH	T: Cyclin-like	F: PF00134	ECOD (1.6)
A	PF21797	e2w2hA2	A: alpha arrays	X: HTH	H: HTH	T: Cyclin-like	F: PF21797	ECOD (1.6)
B	PF00134	e2w2hB1	A: alpha arrays	X: HTH	H: HTH	T: Cyclin-like	F: PF00134	ECOD (1.6)
B	PF21797	e2w2hB2	A: alpha arrays	X: HTH	H: HTH	T: Cyclin-like	F: PF21797	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)
B	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
A, B	PF00134	Cyclin, N-terminal domain (Cyclin_N)	Cyclin, N-terminal domain	Cyclins regulate cyclin dependent kinases (CDKs). Swiss:P22674 is a Uracil-DNA glycosylase that is related to other cyclins [4]. Cyclins contain two domains of similar all-alpha fold, of which this family corresponds with the N-terminal domain.	Domain
A, B	PF21797	Cyclin-T2-like, C-terminal domain (CycT2-like_C)	Cyclin-T2-like, C-terminal domain	This domain is found at the C-terminal end of human Cyclin-T2 (CycT2) and similar animal sequences. CycT2 is the regulatory subunit of the cyclin-dependent kinase pair (CDK9/cyclin T) complex, also called positive transcription elongation factor B (P ...	This domain is found at the C-terminal end of human Cyclin-T2 (CycT2) and similar animal sequences. CycT2 is the regulatory subunit of the cyclin-dependent kinase pair (CDK9/cyclin T) complex, also called positive transcription elongation factor B (P-TEFB). This domain adopts s cyclin box fold consisting of five helices and a short C-terminal helix [2].	Domain
C, D	PF00539	Transactivating regulatory protein (Tat) (Tat)	Transactivating regulatory protein (Tat)	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	CYCLIN-T1	molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor activity RNA binding snRNA binding binding organic cyclic compound binding 7SK snRNA binding nucleic acid binding cyclin-dependent protein serine/threonine kinase activator activity enzyme regulator activity protein serine/threonine kinase activator activity molecular function activator activity protein kinase regulator activity molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor activity RNA binding snRNA binding binding organic cyclic compound binding 7SK snRNA binding nucleic acid binding cyclin-dependent protein serine/threonine kinase activator activity enzyme regulator activity protein serine/threonine kinase activator activity molecular function activator activity protein kinase regulator activity kinase activator activity enzyme activator activity cyclin-dependent protein serine/threonine kinase regulator activity molecular function regulator activity protein kinase activator activity kinase regulator activity	cellular process cell cycle regulation of cellular process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of DNA-templated transcription elongation regulation of biological process cellular process cell cycle regulation of cellular process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of DNA-templated transcription elongation regulation of biological process positive regulation of nucleobase-containing compound metabolic process cellular metabolic process primary metabolic process regulation of cellular metabolic process positive regulation of RNA metabolic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process positive regulation of DNA-templated transcription cellular biosynthetic process positive regulation of biological process RNA metabolic process positive regulation of cellular metabolic process RNA biosynthetic process nucleic acid biosynthetic process organic substance metabolic process positive regulation of DNA-templated transcription, elongation positive regulation of biosynthetic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process biological regulation regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process DNA-templated transcription elongation positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process cell division transcription by RNA polymerase II regulation of transcription by RNA polymerase II regulation of transcription elongation by RNA polymerase II positive regulation of transcription by RNA polymerase II transcription elongation by RNA polymerase II positive regulation of transcription elongation by RNA polymerase II	membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription elongation factor complex nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen protein kinase complex intracellular organelle P-TEFb complex nucleoplasm catalytic complex membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription elongation factor complex nucleus membrane-enclosed lumen nuclear protein-containing complex transferase complex intracellular organelle lumen protein kinase complex intracellular organelle P-TEFb complex nucleoplasm catalytic complex cyclin/CDK positive transcription elongation factor complex cyclin-dependent protein kinase holoenzyme complex intracellular membrane-bounded organelle cellular anatomical entity transferase complex, transferring phosphorus-containing groups organelle lumen carboxy-terminal domain protein kinase complex organelle serine/threonine protein kinase complex nuclear cyclin-dependent protein kinase holoenzyme complex nuclear lumen
C, D	PROTEIN TAT	transcription regulator activity RNA-binding transcription regulator activity RNA binding binding organic cyclic compound binding nucleic acid binding	viral gene expression regulation of biological process regulation of viral process regulation of viral transcription positive regulation of viral process viral process biological regulation positive regulation of biological process viral transcription positive regulation of viral transcription	host intracellular membrane-bounded organelle host cellular component host intracellular part host cell part host intracellular region cellular anatomical entity host cell nucleus host cell nucleolus host cell nuclear part host intracellular organelle
E [auth R], F [auth S]	5'-R(GPCPUPCPAPGPAPUPCPUP GPCPGPGPUPCPUPGPAPGP*C)-3'	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR047320	Cyclin-T1, second cyclin box	Domain
A, B	IPR006671	Cyclin, N-terminal	Domain
A, B	IPR036915	Cyclin-like superfamily	Homologous Superfamily
A, B	IPR043198	Cyclin/Cyclin-like subunit Ssn8	Family
A, B	IPR013763	Cyclin-like domain	Domain
C, D	IPR001831	Immunodeficiency virus transactivating regulatory protein (Tat)	Family

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 R01GM133198.