MultifacetedProtDB - Bologna Biocomputing Group

Structure

PDB	Resolution (Å)	PDB name
2DO3		Solution structure of the third KOW motif of transcription elongation factor SPT5
2E6Z		Solution structure of the second KOW motif of human transcription elongation factor SPT5
2E70		Solution structure of the fifth KOW motif of human transcription elongation factor SPT5
3H7H	1.55	Crystal structure of the human transcription elongation factor DSIF, hSpt4/hSpt5 (176-273)
4L1U	2.424	Crystal Structure of Human Rtf1 Plus3 Domain in Complex with Spt5 CTR Phosphopeptide
5OHO	1.601	Crystal structure of the KOWx-KOW4 domain of human DSIF
5OHQ	1.098	Crystal structure of the KOW6-KOW7 domain of human DSIF
5OIK	3.7	Structure of an RNA polymerase II-DSIF transcription elongation complex
5U98	2.0	The crystal structure of a self-peptide complexed to Abacavir and HLA-B*57:01
6EQY		4th KOW domain of human hSpt5
6ER0		6th KOW domain of human hSpt5
6GMH	3.1	Structure of activated transcription complex Pol II-DSIF-PAF-SPT6
6GML	3.2	Structure of paused transcription complex Pol II-DSIF-NELF
6TED	3.1	Structure of complete, activated transcription complex Pol II-DSIF-PAF-SPT6 uncovers allosteric elongation activation by RTF1
7OKX	3.3	Structure of active transcription elongation complex Pol II-DSIF (SPT5-KOW5)-ELL2-EAF1 (composite structure)
7OKY	4.14	Structure of active transcription elongation complex Pol II-DSIF-ELL2-EAF1(composite structure)
7OL0	3.0	Structure of active transcription elongation complex Pol II-DSIF (SPT5-KOW5)
7PKS	3.6	Structural basis of Integrator-mediated transcription regulation
7UNC	3.0	Pol II-DSIF-SPT6-PAF1c-TFIIS complex with rewrapped nucleosome
7UND	3.0	Pol II-DSIF-SPT6-PAF1c-TFIIS-nucleosome complex (stalled at +38)
7YCX	4.18	The structure of INTAC-PEC complex

GO term

GO ontology	GO term	GO description
Biological Process	GO:0032785	negative regulation of DNA-templated transcription, elongation
Biological Process	GO:0000122	negative regulation of transcription by RNA polymerase II
Biological Process	GO:0032786	positive regulation of DNA-templated transcription, elongation
Biological Process	GO:0016239	positive regulation of macroautophagy
Biological Process	GO:0045944	positive regulation of transcription by RNA polymerase II
Biological Process	GO:0034243	regulation of transcription elongation by RNA polymerase II
Biological Process	GO:0006368	transcription elongation by RNA polymerase II
Biological Process	GO:0140673	transcription elongation-coupled chromatin remodeling
Molecular Function	GO:0003723	RNA binding
Molecular Function	GO:0003682	chromatin binding
Molecular Function	GO:0019899	enzyme binding
Molecular Function	GO:0003729	mRNA binding
Molecular Function	GO:0046982	protein heterodimerization activity
Cellular Component	GO:0032044	DSIF complex
Cellular Component	GO:0005654	nucleoplasm
Cellular Component	GO:0005634	nucleus

InterPro / Pfam

InterPro	InterPro name
IPR005100	NGN domain
IPR005824	KOW
IPR006645	NusG-like, N-terminal
IPR008991	Translation protein SH3-like domain superfamily
IPR014722	Ribosomal protein L2, domain 2
IPR017071	Transcription elongation factor Spt5, eukaryote
IPR022581	Spt5 transcription elongation factor, N-terminal
IPR024945	Spt5 C-terminal domain
IPR036735	NusG, N-terminal domain superfamily
IPR039385	NGN domain, eukaryotic
IPR039659	Transcription elongation factor SPT5
IPR041973	Spt5, KOW domain repeat 1
IPR041975	Spt5, KOW domain repeat 2
IPR041976	Spt5, KOW domain repeat 3
IPR041977	Spt5, KOW domain repeat 4
IPR041978	Spt5, KOW domain repeat 5
IPR041980	Spt5, KOW domain repeat 6

Pfam	Pfam name
PF00467	KOW motif
PF03439	Early transcription elongation factor of RNA pol II, NGN section
PF11942	Spt5 transcription elongation factor, acidic N-terminal

Reactome

Reactome	Reactome Name	Node type	Reactome Root	Reactome Root Name
R-HSA-112382	Formation of RNA Pol II elongation complex	Leaf	R-HSA-74160	Gene expression (Transcription)
R-HSA-113418	Formation of the Early Elongation Complex	Leaf	R-HSA-74160	Gene expression (Transcription)
R-HSA-167152	Formation of HIV elongation complex in the absence of HIV Tat	Leaf	R-HSA-1643685	Disease
R-HSA-167158	Formation of the HIV-1 Early Elongation Complex	Leaf	R-HSA-1643685	Disease
R-HSA-167160	RNA Pol II CTD phosphorylation and interaction with CE during HIV infection	Leaf	R-HSA-1643685	Disease
R-HSA-167200	Formation of HIV-1 elongation complex containing HIV-1 Tat	Leaf	R-HSA-1643685	Disease
R-HSA-167238	Pausing and recovery of Tat-mediated HIV elongation	Leaf	R-HSA-1643685	Disease
R-HSA-167242	Abortive elongation of HIV-1 transcript in the absence of Tat	Leaf	R-HSA-1643685	Disease
R-HSA-167243	Tat-mediated HIV elongation arrest and recovery	Leaf	R-HSA-1643685	Disease
R-HSA-167246	Tat-mediated elongation of the HIV-1 transcript	Internal node	R-HSA-1643685	Disease
R-HSA-167287	HIV elongation arrest and recovery	Leaf	R-HSA-1643685	Disease
R-HSA-167290	Pausing and recovery of HIV elongation	Leaf	R-HSA-1643685	Disease
R-HSA-674695	RNA Polymerase II Pre-transcription Events	Leaf	R-HSA-74160	Gene expression (Transcription)
R-HSA-6796648	TP53 Regulates Transcription of DNA Repair Genes	Leaf	R-HSA-74160	Gene expression (Transcription)
R-HSA-6807505	RNA polymerase II transcribes snRNA genes	Leaf	R-HSA-74160	Gene expression (Transcription)
R-HSA-72086	mRNA Capping	Leaf	R-HSA-8953854	Metabolism of RNA
R-HSA-75955	RNA Polymerase II Transcription Elongation	Internal node	R-HSA-74160	Gene expression (Transcription)
R-HSA-77075	RNA Pol II CTD phosphorylation and interaction with CE	Leaf	R-HSA-74160	Gene expression (Transcription)

Subcellular location

Location	ECO term	Pubmed
Nucleus	ECO:0000269	PubMed:10075709

Interactor | Variant | Drug

Phenotype

Tissue and cell type

Tissue	Cell type	Expression level	Reliability
adipose tissue	adipocytes	Medium	Supported
adrenal gland	glandular cells	Medium	Supported
appendix	glandular cells	Medium	Supported
appendix	lymphoid tissue	Medium	Supported
bone marrow	hematopoietic cells	Medium	Supported
breast	adipocytes	Low	Supported
breast	glandular cells	Medium	Supported
breast	myoepithelial cells	Medium	Supported
bronchus	ciliated cells (cell body)	Medium	Supported
caudate	glial cells	Low	Supported
caudate	neuronal cells	Low	Supported
cerebellum	Purkinje cells	Medium	Supported
cerebellum	cells in granular layer	Low	Supported
cerebellum	cells in molecular layer	Low	Supported
cerebral cortex	glial cells	Low	Supported
cerebral cortex	neuronal cells	Medium	Supported
cervix	glandular cells	Medium	Supported
cervix	squamous epithelial cells	Medium	Supported
colon	endothelial cells	Medium	Supported
colon	glandular cells	Medium	Supported
colon	peripheral nerve/ganglion	Medium	Supported
duodenum	glandular cells	Medium	Supported
endometrium 1	cells in endometrial stroma	Low	Supported
endometrium 1	glandular cells	Medium	Supported
endometrium 2	cells in endometrial stroma	Low	Supported
endometrium 2	glandular cells	Low	Supported
epididymis	glandular cells	Medium	Supported
esophagus	squamous epithelial cells	Medium	Supported
fallopian tube	ciliated cells (cell body)	Medium	Supported
fallopian tube	ciliated cells (ciliary rootlets)	Low	Supported
fallopian tube	non-ciliated cells	Medium	Supported
gallbladder	glandular cells	Medium	Supported
heart muscle	cardiomyocytes	Medium	Supported
hippocampus	glial cells	Low	Supported
hippocampus	neuronal cells	Low	Supported
kidney	cells in glomeruli	Low	Supported
kidney	cells in tubules	Medium	Supported
liver	cholangiocytes	Low	Supported
liver	hepatocytes	Low	Supported
lung	alveolar cells type I	Medium	Supported
lung	macrophages	Medium	Supported
lymph node	germinal center cells	Medium	Supported
lymph node	non-germinal center cells	Medium	Supported
nasopharynx	ciliated cells (cell body)	Medium	Supported
oral mucosa	squamous epithelial cells	Medium	Supported
ovary	follicle cells	Low	Supported
ovary	ovarian stroma cells	Low	Supported
pancreas	exocrine glandular cells	Medium	Supported
pancreas	pancreatic endocrine cells	Medium	Supported
parathyroid gland	glandular cells	Low	Supported
placenta	cytotrophoblasts	High	Supported
placenta	decidual cells	High	Supported
placenta	endothelial cells	Medium	Supported
placenta	hofbauer cells	Medium	Supported
placenta	syncytiotrophoblasts - cell body	High	Supported
placenta	syncytiotrophoblasts - microvilli	Low	Supported
prostate	glandular cells	Medium	Supported
rectum	glandular cells	Medium	Supported
salivary gland	glandular cells	Medium	Supported
seminal vesicle	glandular cells	Medium	Supported
skeletal muscle	myocytes	Medium	Supported
skin 1	Langerhans	Medium	Supported
skin 1	fibroblasts	Low	Supported
skin 1	keratinocytes	Medium	Supported
skin 1	melanocytes	Medium	Supported
skin 2	epidermal cells	Medium	Supported
small intestine	glandular cells	Medium	Supported
smooth muscle	smooth muscle cells	Low	Supported
soft tissue 1	fibroblasts	Low	Supported
soft tissue 1	peripheral nerve	Low	Supported
soft tissue 2	fibroblasts	Low	Supported
soft tissue 2	peripheral nerve	Low	Supported
spleen	cells in red pulp	Low	Supported
spleen	cells in white pulp	Low	Supported
stomach 1	glandular cells	Medium	Supported
stomach 2	glandular cells	Medium	Supported
testis	pachytene spermatocytes	Low	Supported
testis	round or early spermatids	Medium	Supported
testis	sertoli cells	Low	Supported
testis	spermatogonia cells	Medium	Supported
thyroid gland	glandular cells	Medium	Supported
tonsil	germinal center cells	Medium	Supported
tonsil	non-germinal center cells	Medium	Supported
tonsil	squamous epithelial cells	Medium	Supported
urinary bladder	urothelial cells	Medium	Supported
vagina	squamous epithelial cells	Medium	Supported

Summary of O00267

Gene: SUPT5H, SPT5, SPT5H
Protein: Transcription elongation factor SPT5

Structure

GO term

InterPro / Pfam

Reactome

Subcellular location

Interactor | Variant | Drug

Phenotype

Tissue and cell type

Disease

Summary of O00267

Gene: SUPT5H, SPT5, SPT5H Protein: Transcription elongation factor SPT5

Structure

GO term

InterPro / Pfam

Reactome

Subcellular location

Interactor | Variant | Drug

Phenotype

Tissue and cell type

Disease

Gene: SUPT5H, SPT5, SPT5H
Protein: Transcription elongation factor SPT5