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SUPT5H Gene(Protein Coding)

SPT5 Homolog, DSIF Elongation Factor Subunit

GCID:
GC19P039436
GIFtS:
58
Genes Participants
UDN Logo

Aliases for SUPT5H Gene

Aliases for SUPT5H Gene

  • SPT5 Homolog, DSIF Elongation Factor Subunit 2 3 5
  • DRB Sensitivity-Inducing Factor 160 KDa Subunit 3 4
  • DRB Sensitivity-Inducing Factor Large Subunit 3 4
  • Tat-Cotransactivator 1 Protein 3 4
  • DSIF Large Subunit 3 4
  • DSIF P160 3 4
  • SPT5H 3 4
  • HSPT5 3 4
  • SPT5 3 4
  • Suppressor Of Ty 5 Homolog (S. Cerevisiae) 2
  • Suppressor Of Ty (S.Cerevisiae) 5 Homolog 2
  • Suppressor Of Ty 5 Homolog 3
  • Tat-CT1 Protein 4
  • Tat-CT1 3

External Ids for SUPT5H Gene

Previous GeneCards Identifiers for SUPT5H Gene

  • GC19P040577
  • GC19P040327
  • GC19P044612
  • GC19P044628
  • GC19P039936
  • GC19P036382

Summaries for SUPT5H Gene

GeneCards Summary for SUPT5H Gene

SUPT5H (SPT5 Homolog, DSIF Elongation Factor Subunit) is a Protein Coding gene. Diseases associated with SUPT5H include Hiv-1. Among its related pathways are Formation of the HIV-1 Early Elongation Complex and Gene Expression. GO annotations related to this gene include poly(A) RNA binding and chromatin binding.

UniProtKB/Swiss-Prot for SUPT5H Gene

  • Component of the DRB sensitivity-inducing factor complex (DSIF complex), which regulates mRNA processing and transcription elongation by RNA polymerase II. DSIF positively regulates mRNA capping by stimulating the mRNA guanylyltransferase activity of RNGTT/CAP1A. DSIF also acts cooperatively with the negative elongation factor complex (NELF complex) to enhance transcriptional pausing at sites proximal to the promoter. Transcriptional pausing may facilitate the assembly of an elongation competent RNA polymerase II complex. DSIF and NELF promote pausing by inhibition of the transcription elongation factor TFIIS/S-II. TFIIS/S-II binds to RNA polymerase II at transcription pause sites and stimulates the weak intrinsic nuclease activity of the enzyme. Cleavage of blocked transcripts by RNA polymerase II promotes the resumption of transcription from the new 3 terminus and may allow repeated attempts at transcription through natural pause sites. DSIF can also positively regulate transcriptional elongation and is required for the efficient activation of transcriptional elongation by the HIV-1 nuclear transcriptional activator, Tat. DSIF acts to suppress transcriptional pausing in transcripts derived from the HIV-1 LTR and blocks premature release of HIV-1 transcripts at terminator sequences.

Gene Wiki entry for SUPT5H Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SUPT5H Gene

Genomics for SUPT5H Gene

Products:

  1. Regulatory Element

Regulatory Elements for SUPT5H Gene

Enhancers for SUPT5H Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around SUPT5H on UCSC Golden Path with GeneCards custom track

Promoters for SUPT5H Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around SUPT5H on UCSC Golden Path with GeneCards custom track

Transcription factor binding sites by QIAGEN in the SUPT5H gene promoter:

Genomic Location for SUPT5H Gene

Chromosome:
19
Start:
39,436,156 bp from pter
End:
39,476,670 bp from pter
Size:
40,515 bases
Orientation:
Plus strand

Genomic View for SUPT5H Gene

Genes around SUPT5H on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SUPT5H Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SUPT5H Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for SUPT5H Gene

Proteins for SUPT5H Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for SUPT5H Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O00267-SPT5H_HUMAN
    Recommended name:
    Transcription elongation factor SPT5
    Protein Accession:
    O00267
    Secondary Accessions:
    • O43279
    • Q59G52
    • Q99639

    Protein attributes for SUPT5H Gene

    Size:
    1087 amino acids
    Molecular mass:
    121000 Da
    Quaternary structure:
    • Interacts with SUPT4H1 to form DSIF. DSIF interacts with the positive transcription elongation factor b complex (P-TEFb complex), which is composed of CDK9 and cyclin-T (CCNT1 or CCNT2). DSIF interacts with RNA polymerase II, and this interaction is reduced by phosphorylation of the C-terminal domain (CTD) of POLR2A by P-TEFb. DSIF also interacts with the NELF complex, which is composed of WHSC2/NELFA, COBRA1/NELFB, TH1L/NELFD and RDBP/NELFE, and this interaction occurs following prior binding of DSIF to RNA polymerase II. DSIF also interacts with PRMT1/HRMT1L2, HTATSF1/TATSF1, RNGTT/CAP1A, PRMT5/SKB1, SUPT6H, and can interact with PIN1. Component of a complex which is at least composed of HTATSF1/Tat-SF1, the P-TEFb complex components CDK9 and CCNT1, RNA polymerase II, SUPT5H, and NCL/nucleolin.
    SequenceCaution:
    • Sequence=BAD92494.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SUPT5H Gene

    Alternative splice isoforms for SUPT5H Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SUPT5H Gene

Proteomics data for SUPT5H Gene at MOPED

Protein Expression for SUPT5H Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for SUPT5H Gene

  • Methylated by PRMT1/HRMT1L2 and PRMT5/SKB1. Methylation negatively regulates interaction with P-TEFb and RNA polymerase II.
  • Phosphorylated by CDK7 and CDK9. Phosphorylation by P-TEFb alleviates transcriptional pausing and can stimulate transcriptional elongation from the HIV-1 LTR. P-TEFb dependent phosphorylation is stimulated by the HIV-1 Tat protein. Phosphorylation may also stimulate interaction with PIN1. Bulk phosphorylation occurs predominantly in mitosis.
  • Ubiquitination at Lys 147, Lys 199, Lys 213, Lys 306, Lys 323, Lys 650, and Lys 718
  • Modification sites at PhosphoSitePlus

Other Protein References for SUPT5H Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SUPT5H Gene

Domains & Families for SUPT5H Gene

Protein Domains for SUPT5H Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for SUPT5H Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O00267

UniProtKB/Swiss-Prot:

SPT5H_HUMAN :
  • Contains 5 KOW domains.
  • Belongs to the SPT5 family.
Domain:
  • Contains 5 KOW domains.
Family:
  • Belongs to the SPT5 family.
genes like me logo Genes that share domains with SUPT5H: view

No data available for Gene Families for SUPT5H Gene

Function for SUPT5H Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line
  7. Flow Cytometry

Molecular function for SUPT5H Gene

GENATLAS Biochemistry:
putative chromatin structure regulator yeast Spt5 homolog,(histones group)
UniProtKB/Swiss-Prot Function:
Component of the DRB sensitivity-inducing factor complex (DSIF complex), which regulates mRNA processing and transcription elongation by RNA polymerase II. DSIF positively regulates mRNA capping by stimulating the mRNA guanylyltransferase activity of RNGTT/CAP1A. DSIF also acts cooperatively with the negative elongation factor complex (NELF complex) to enhance transcriptional pausing at sites proximal to the promoter. Transcriptional pausing may facilitate the assembly of an elongation competent RNA polymerase II complex. DSIF and NELF promote pausing by inhibition of the transcription elongation factor TFIIS/S-II. TFIIS/S-II binds to RNA polymerase II at transcription pause sites and stimulates the weak intrinsic nuclease activity of the enzyme. Cleavage of blocked transcripts by RNA polymerase II promotes the resumption of transcription from the new 3 terminus and may allow repeated attempts at transcription through natural pause sites. DSIF can also positively regulate transcriptional elongation and is required for the efficient activation of transcriptional elongation by the HIV-1 nuclear transcriptional activator, Tat. DSIF acts to suppress transcriptional pausing in transcripts derived from the HIV-1 LTR and blocks premature release of HIV-1 transcripts at terminator sequences.

Phenotypes for SUPT5H Gene

MGI mutant phenotypes for SUPT5H:
inferred from 1 alleles
GenomeRNAi human phenotypes for SUPT5H:
genes like me logo Genes that share phenotypes with SUPT5H: view

Animal Models for SUPT5H Gene

MGI Knock Outs for SUPT5H:

Animal Model Products

CRISPR Products

miRNA for SUPT5H Gene

miRTarBase miRNAs that target SUPT5H

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SUPT5H Gene

Localization for SUPT5H Gene

Subcellular locations from UniProtKB/Swiss-Prot for SUPT5H Gene

Nucleus.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SUPT5H Gene COMPARTMENTS Subcellular localization image for SUPT5H gene
Compartment Confidence
nucleus 5
cytosol 2

No data available for Gene Ontology (GO) - Cellular Components for SUPT5H Gene

Pathways & Interactions for SUPT5H Gene

genes like me logo Genes that share pathways with SUPT5H: view

SIGNOR curated interactions for SUPT5H Gene

Is activated by:

Gene Ontology (GO) - Biological Process for SUPT5H Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter IDA 9450929
GO:0006338 chromatin remodeling NAS 10075709
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006366 transcription from RNA polymerase II promoter TAS --
GO:0006368 transcription elongation from RNA polymerase II promoter TAS --
genes like me logo Genes that share ontologies with SUPT5H: view

Drugs & Compounds for SUPT5H Gene

Products:

  1. Drug

(1) Additional Compounds for SUPT5H Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with SUPT5H: view

Transcripts for SUPT5H Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone
  5. Flow Cytometry

mRNA/cDNA for SUPT5H Gene

(8) REFSEQ mRNAs :
(13) Additional mRNA sequences :
(471) Selected AceView cDNA sequences:
(20) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for SUPT5H Gene

Suppressor of Ty 5 homolog (S. cerevisiae):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SUPT5H Gene

ExUns: 1a · 1b ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5a · 5b · 5c ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14a · 14b · 14c ^ 15 ^ 16 ^ 17a · 17b ^
SP1: - -
SP2:
SP3: - - - - - - - - - -
SP4: - -
SP5:
SP6: - - - - - - - - - - - - - - - - - - - - -
SP7: - - - - - - - - - - - - -
SP8:

ExUns: 18 ^ 19 ^ 20 ^ 21 ^ 22 ^ 23 ^ 24 ^ 25a · 25b ^ 26 ^ 27a · 27b ^ 28a · 28b ^ 29a · 29b ^ 30a · 30b
SP1: - -
SP2:
SP3: - - - - - - - -
SP4:
SP5:
SP6:
SP7:
SP8:

Relevant External Links for SUPT5H Gene

GeneLoc Exon Structure for
SUPT5H
ECgene alternative splicing isoforms for
SUPT5H

Expression for SUPT5H Gene

Products:

  1. Primer

mRNA expression in normal human tissues for SUPT5H Gene

mRNA expression in normal human tissues for SUPT5H Gene
mRNA expression by BioGPS for SUPT5H GenemRNA expression by GTEx for SUPT5H Gene

Protein differential expression in normal tissues from HIPED for SUPT5H Gene

This gene is overexpressed in Peripheral blood mononuclear cells (13.3), CD8 Tcells (9.4), and Lymph node (9.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for SUPT5H Gene



SOURCE GeneReport for Unigene cluster for SUPT5H Gene Hs.631604

mRNA Expression by UniProt/SwissProt for SUPT5H Gene

O00267-SPT5H_HUMAN
Tissue specificity: Ubiquitously expressed.
genes like me logo Genes that share expression patterns with SUPT5H: view

Protein tissue co-expression partners for SUPT5H Gene

- Elite partner

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for SUPT5H Gene

Orthologs for SUPT5H Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SUPT5H Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
 Mammalia SUPT5H 35
  • 93.2 (n)
  • 99.45 (a)
SUPT5H 36
  • 97 (a)
 OneToOne
dog
(Canis familiaris)
 Mammalia SUPT5H 35
  • 92.76 (n)
  • 99.63 (a)
SUPT5H 36
  • 100 (a)
 OneToOne
mouse
(Mus musculus)
 Mammalia Supt5 35
  • 88.34 (n)
  • 96.85 (a)
Supt5 16
Supt5 36
  • 98 (a)
 OneToOne
chimpanzee
(Pan troglodytes)
 Mammalia SUPT5H 35
  • 99.51 (n)
  • 99.91 (a)
SUPT5H 36
  • 100 (a)
 OneToOne
rat
(Rattus norvegicus)
 Mammalia Supt5h 35
  • 88.76 (n)
  • 97.13 (a)
oppossum
(Monodelphis domestica)
 Mammalia SUPT5H 36
  • 93 (a)
 OneToOne
platypus
(Ornithorhynchus anatinus)
 Mammalia SUPT5H 36
  • 97 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves SUPT5H 35
  • 84.12 (n)
  • 95.08 (a)
SUPT5H 36
  • 96 (a)
 OneToOne
lizard
(Anolis carolinensis)
 Reptilia SUPT5H 36
  • 95 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia Str.2822 35
supt5h 35
  • 77.1 (n)
  • 90.77 (a)
African clawed frog
(Xenopus laevis)
 Amphibia Xl.5044 35
zebrafish
(Danio rerio)
 Actinopterygii supt5h 35
  • 76.79 (n)
  • 87.78 (a)
supt5h 36
  • 88 (a)
 OneToOne
fruit fly
(Drosophila melanogaster)
 Insecta Spt5 37
  • 53 (a)
Spt5 35
  • 60.38 (n)
  • 58.95 (a)
Spt5 36
  • 54 (a)
 OneToOne
African malaria mosquito
(Anopheles gambiae)
 Insecta AgaP_AGAP005021 35
  • 62.29 (n)
  • 60.29 (a)
worm
(Caenorhabditis elegans)
 Secernentea spt-5 35
  • 49.29 (n)
  • 45.29 (a)
spt-5 36
  • 37 (a)
 OneToOne
A. gosspyii yeast
(Ashbya gossypii)
 Saccharomycetes AGOS_ADR187W 35
  • 45.32 (n)
  • 30.96 (a)
K. lactis yeast
(Kluyveromyces lactis)
 Saccharomycetes KLLA0B00891g 35
  • 43.27 (n)
  • 34.56 (a)
baker's yeast
(Saccharomyces cerevisiae)
 Saccharomycetes SPT5 35
  • 42.36 (n)
  • 34.06 (a)
SPT5 36
  • 26 (a)
 OneToOne
SPT5 38
thale cress
(Arabidopsis thaliana)
 eudicotyledons GTA2 35
  • 46.46 (n)
  • 38.28 (a)
rice
(Oryza sativa)
 Liliopsida Os02g0772000 35
  • 47.82 (n)
  • 38.86 (a)
bread mold
(Neurospora crassa)
 Ascomycetes NCU06929 35
  • 47.67 (n)
  • 36.3 (a)
fission yeast
(Schizosaccharomyces pombe)
 Schizosaccharomycetes spt5 35
  • 47.05 (n)
  • 41.14 (a)
sea squirt
(Ciona savignyi)
 Ascidiacea -- 36
  • 58 (a)
 OneToOne
Species with no ortholog for SUPT5H:
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SUPT5H Gene

ENSEMBL:
Gene Tree for SUPT5H (if available)
TreeFam:
Gene Tree for SUPT5H (if available)

Paralogs for SUPT5H Gene

No data available for Paralogs for SUPT5H Gene

Variants for SUPT5H Gene

Sequence variations from dbSNP and Humsavar for SUPT5H Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs7359872 -- 39,472,096(+) ggctc(A/G)ggaga intron-variant
rs12978920 -- 39,443,925(+) cctcc(C/T)gggtt upstream-variant-2KB
rs12978954 -- 39,443,994(+) cgccc(A/G)gctaa upstream-variant-2KB
rs12979605 -- 39,444,023(+) gtaga(A/G)atggg upstream-variant-2KB
rs12981262 -- 39,461,831(+) aaaaa(A/T)aaaaa intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SUPT5H Gene

Variant ID Type Subtype PubMed ID
nsv911685 CNV Loss 21882294
dgv3863n71 CNV Loss 21882294
nsv523856 CNV Loss 19592680

Variation tolerance for SUPT5H Gene

Residual Variation Intolerance Score: 0.867% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.90; 35.41% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SUPT5H Gene

Human Gene Mutation Database (HGMD)
SUPT5H

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SUPT5H Gene

Disorders for SUPT5H Gene

MalaCards: The human disease database

(1) MalaCards diseases for SUPT5H Gene - From: GeneCards

Disorder Aliases PubMed IDs
hiv-1
  • aids, slow progression to
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for SUPT5H

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SUPT5H
genes like me logo Genes that share disorders with SUPT5H: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SUPT5H Gene

Publications for SUPT5H Gene

  1. Isolation, sequencing, and mapping of the human homologue of the yeast transcription factor, SPT5. (PMID: 8975720) Chiang P.-W. … Kurnit D.M. (Genomics 1996) 2 3 4 23 67
  2. Structure and function of the human transcription elongation factor DSIF. (PMID: 10075709) Yamaguchi Y. … Handa H. (J. Biol. Chem. 1999) 2 3 23
  3. Crystal structure of the human transcription elongation factor DSIF hSpt4 subunit in complex with the hSpt5 dimerization interface. (PMID: 19860741) Wenzel S. … Wohrl B.M. (Biochem. J. 2010) 3 23
  4. Repression of RNA polymerase II elongation in vivo is critically dependent on the C-terminus of Spt5. (PMID: 19742326) Chen H. … Guo S. (PLoS ONE 2009) 3 23
  5. Interplay between E-box and NF-kappaB in regulation of A20 gene by DRB sensitivity-inducing factor (DSIF). (PMID: 17962196) Amir-Zilberstein L. … Dikstein R. (J. Biol. Chem. 2008) 3 23

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