5OHO | pdb_00005oho

Crystal structure of the KOWx-KOW4 domain of human DSIF

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	KOW	e5ohoB1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: KOW	ECOD (1.6)
B	UNK_F_TYPE	e5ohoB2	A: beta barrels	X: SH3	H: SH3	T: SH3	F: UNK_F_TYPE	ECOD (1.6)
A	KOW	e5ohoA1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: KOW	ECOD (1.6)
A	UNK_F_TYPE	e5ohoA2	A: beta barrels	X: SH3	H: SH3	T: SH3	F: UNK_F_TYPE	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF23037	Transcription elongation factor SPT5, KOWx domain (KOWx_SPT5)	Transcription elongation factor SPT5, KOWx domain	This domain is found in human Transcription elongation factor SPT5 and related proteins from eukaryotes. SPT5 is a component of the elongation factor DRB-sensitivity inducing factor (DSIF) that plays multiple roles during transcription. SPT5 is a mul ...	This domain is found in human Transcription elongation factor SPT5 and related proteins from eukaryotes. SPT5 is a component of the elongation factor DRB-sensitivity inducing factor (DSIF) that plays multiple roles during transcription. SPT5 is a multidomain protein consisting of an N-terminal NusG domain, a tandem of KOW domains and and a mobile C-terminal-repeat region. This entry represents the KOWx domain that is located between domains KOW3 and KOW4. The KOWx domain along with KOW4 and KOW5 forms an RNA clamp [1]. The tandem KOWx-4 contacts the wall, stalk, and dock domains of Pol II [1]. This only includes Spt5 proteins from eukaryotes.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Transcription elongation factor SPT5	chromatin binding binding protein heterodimerization activity protein binding protein dimerization activity RNA binding nucleic acid binding mRNA binding enzyme binding	regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of DNA-templated transcription, elongation positive regulation of biosynthetic process regulation of cellular process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of DNA-templated transcription, elongation 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 DNA-templated transcription elongation regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression DNA-templated transcription elongation biosynthetic process positive regulation of RNA biosynthetic process cellular process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process 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 metabolic process negative regulation of DNA-templated transcription, elongation negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process transcription elongation by RNA polymerase II transcription by RNA polymerase II regulation of transcription elongation by RNA polymerase II positive regulation of autophagy catabolic process macroautophagy autophagy regulation of catabolic process regulation of autophagy positive regulation of catabolic process regulation of macroautophagy positive regulation of macroautophagy process utilizing autophagic mechanism positive regulation of transcription elongation by RNA polymerase II regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II negative regulation of transcription by RNA polymerase II	membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription elongation factor complex DSIF complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen membrane-bounded organelle protein-containing complex intracellular anatomical structure transcription elongation factor complex DSIF 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

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR057934	Spt5, KOW domain repeat 7	Domain
A, B	IPR041976	Spt5, KOW domain repeat 3	Domain
A, B	IPR041980	Spt5, KOW domain repeat 6, metazoa	Domain
A, B	IPR039385	NGN domain, eukaryotic	Domain
A, B	IPR014722	Large ribosomal subunit protein uL2, domain 2	Homologous Superfamily
A, B	IPR022581	Spt5 transcription elongation factor, N-terminal	Domain
A, B	IPR024945	Spt5 C-terminal domain	Domain
A, B	IPR057936	Spt5, KOWx domain	Domain
A, B	IPR006645	NusG-like, N-terminal	Domain
A, B	IPR041975	Spt5, KOW domain repeat 2	Domain
A, B	IPR039659	Transcription elongation factor SPT5	Family
A, B	IPR036735	NusG, N-terminal domain superfamily	Homologous Superfamily
A, B	IPR008991	Translation protein SH3-like domain superfamily	Homologous Superfamily
A, B	IPR041973	Spt5, KOW domain repeat 1	Domain
A, B	IPR005100	NGN domain	Domain
A, B	IPR041977	Spt5, KOW domain repeat 4	Domain
A, B	IPR017071	Transcription elongation factor Spt5, eukaryote	Family
A, B	IPR005824	KOW	Domain
A, B	IPR041978	Spt5, KOW domain repeat 5	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: O00267	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.