3PJP | pdb_00003pjp

A Tandem SH2 Domain in Transcription Elongation Factor Spt6 Binds the Phosphorylated RNA Polymerase II C-terminal Repeat Domain(CTD)

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)
B	SH2_2	e3pjpB1	A: a/b three-layered sandwiches	X: jelly-roll	H: Galactose-binding domain-like	T: Galactose-binding domain-like	F: SH2_2	ECOD (v294.1)
A	Cupin_7	e3pjpA3	A: a/b three-layered sandwiches	X: Subtilisin-like	H: Subtilisin-like	T: Subtilisin-like	F: Cupin_7	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.30.505.10	Alpha Beta	2-Layer Sandwich	SHC Adaptor Protein	SH2 domain	CATH (4.3.0)
A	3.30.505.10	Alpha Beta	2-Layer Sandwich	SHC Adaptor Protein	SH2 domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF14633	SH2 domain (SH2_2)	SH2 domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Transcription elongation factor SPT6	protein binding binding histone binding transcription antitermination factor activity, DNA binding transcription regulator activity DNA binding nucleic acid binding protein-containing complex binding chromatin binding nucleosome binding	regulation of cellular process RNA metabolic process mRNA processing regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process regulation of RNA metabolic process RNA 3'-end processing regulation of nucleobase-containing compound metabolic process RNA processing regulation of mRNA processing regulation of biological process mRNA 3'-end processing regulation of cellular process RNA metabolic process mRNA processing regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process regulation of RNA metabolic process RNA 3'-end processing regulation of nucleobase-containing compound metabolic process RNA processing regulation of mRNA processing regulation of biological process mRNA 3'-end processing regulation of mRNA 3'-end processing biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression nucleobase-containing compound biosynthetic process mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of mRNA metabolic process regulation of metabolic process cellular response to stimulus cellular response to stress response to stimulus response to stress protein-containing complex organization protein-DNA complex assembly cellular component organization protein-DNA complex organization cellular component biogenesis cellular component assembly chromatin organization protein-containing complex assembly chromatin remodeling cellular component organization or biogenesis nucleosome assembly nucleosome organization cellular localization nitrogen compound transport nucleocytoplasmic transport transport nuclear transport mRNA transport localization intercellular transport mRNA export from nucleus establishment of localization in cell RNA localization nuclear export nucleobase-containing compound transport RNA transport nucleic acid transport poly(A)+ mRNA export from nucleus intracellular transport establishment of localization RNA export from nucleus establishment of RNA localization macromolecule localization transcription elongation by RNA polymerase II transcription elongation-coupled chromatin remodeling DNA-templated transcription DNA-templated transcription elongation transcription by RNA polymerase II mitotic cell cycle process cell cycle phase transition cell cycle G1/S transition of mitotic cell cycle cell cycle G1/S phase transition mitotic cell cycle mitotic cell cycle phase transition cell cycle process positive regulation of DNA-templated transcription positive regulation of transcription elongation by RNA polymerase II positive regulation of biological process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of DNA-templated transcription, elongation positive regulation of macromolecule 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 DNA-templated transcription elongation regulation of transcription elongation by RNA polymerase II positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process regulation of gene expression positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription negative regulation of biological process negative regulation of RNA biosynthetic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process negative regulation of macromolecule metabolic process negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process	membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription elongation factor complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription elongation factor complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen pericentric heterochromatin intracellular membraneless organelle chromatin chromosome heterochromatin chromosomal region membraneless organelle chromosome, centromeric region euchromatin

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR042066	Spt6, Death-like domain	Homologous Superfamily
A, B	IPR028231	Transcription elongation factor Spt6, YqgF domain	Domain
A, B	IPR037027	YqgF/RNase H-like domain superfamily	Homologous Superfamily
A, B	IPR036860	SH2 domain superfamily	Homologous Superfamily
A, B	IPR000980	SH2 domain	Domain
A, B	IPR006641	YqgF/RNase H-like domain	Domain
A, B	IPR010994	RuvA domain 2-like	Homologous Superfamily
A, B	IPR023319	Tex-like protein, HTH domain superfamily	Homologous Superfamily
A, B	IPR012337	Ribonuclease H-like superfamily	Homologous Superfamily
A, B	IPR017072	Transcription elongation factor Spt6	Family
A, B	IPR035420	Spt6, SH2 domain	Domain
A, B	IPR032706	Transcription elongation factor Spt6, helix-hairpin-helix motif	Domain
A, B	IPR049540	Spt6-like, S1/OB domain	Domain
A, B	IPR023323	Tex-like domain superfamily	Homologous Superfamily
A, B	IPR055179	Tex-like, central region	Domain
A, B	IPR028088	Helix-turn-helix DNA-binding domain of Spt6	Domain
A, B	IPR035019	Spt6, SH2 domain, N terminus	Domain
A, B	IPR035018	Spt6, SH2 domain, C terminus	Domain
A, B	IPR028083	Spt6 acidic, N-terminal domain	Domain

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.