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Protein

Transcription elongation factor SPT4

Gene

SUPT4H1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

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.13 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri16 – 36C4-typeSequence analysisAdd BLAST21

GO - Molecular functioni

  • DNA binding transcription factor activity Source: ProtInc
  • protein heterodimerization activity Source: UniProtKB
  • RNA polymerase II core binding Source: GO_Central
  • single-stranded RNA binding Source: GO_Central
  • zinc ion binding Source: InterPro

GO - Biological processi

  • chromatin remodeling Source: ProtInc
  • mRNA processing Source: GO_Central
  • negative regulation of DNA-templated transcription, elongation Source: UniProtKB
  • negative regulation of transcription by RNA polymerase II Source: UniProtKB
  • negative regulation of transcription elongation from RNA polymerase II promoter Source: Ensembl
  • positive regulation of DNA-templated transcription, elongation Source: UniProtKB
  • positive regulation of transcription by RNA polymerase II Source: UniProtKB
  • regulation of transcription, DNA-templated Source: ProtInc
  • regulation of transcription by RNA polymerase II Source: ProtInc
  • regulation of transcription elongation from RNA polymerase II promoter Source: GO_Central
  • transcription by RNA polymerase II Source: Reactome
  • transcription elongation from RNA polymerase II promoter Source: UniProtKB

Keywordsi

Molecular functionActivator, Repressor
Biological processTranscription, Transcription regulation
LigandMetal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-HSA-112382 Formation of RNA Pol II elongation complex
R-HSA-113418 Formation of the Early Elongation Complex
R-HSA-167152 Formation of HIV elongation complex in the absence of HIV Tat
R-HSA-167158 Formation of the HIV-1 Early Elongation Complex
R-HSA-167200 Formation of HIV-1 elongation complex containing HIV-1 Tat
R-HSA-167238 Pausing and recovery of Tat-mediated HIV elongation
R-HSA-167242 Abortive elongation of HIV-1 transcript in the absence of Tat
R-HSA-167243 Tat-mediated HIV elongation arrest and recovery
R-HSA-167246 Tat-mediated elongation of the HIV-1 transcript
R-HSA-167287 HIV elongation arrest and recovery
R-HSA-167290 Pausing and recovery of HIV elongation
R-HSA-674695 RNA Polymerase II Pre-transcription Events
R-HSA-6796648 TP53 Regulates Transcription of DNA Repair Genes
R-HSA-6807505 RNA polymerase II transcribes snRNA genes
R-HSA-75955 RNA Polymerase II Transcription Elongation

Names & Taxonomyi

Protein namesi
Recommended name:
Transcription elongation factor SPT4
Short name:
hSPT4
Alternative name(s):
DRB sensitivity-inducing factor 14 kDa subunit
Short name:
DSIF p14
DRB sensitivity-inducing factor small subunit
Short name:
DSIF small subunit
Gene namesi
Name:SUPT4H1
Synonyms:SPT4H, SUPT4H
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi

Organism-specific databases

EuPathDBiHostDB:ENSG00000213246.6
HGNCiHGNC:11467 SUPT4H1
MIMi603555 gene
neXtProtiNX_P63272

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

DisGeNETi6827
OpenTargetsiENSG00000213246
PharmGKBiPA36253

Polymorphism and mutation databases

DMDMi54039624

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedCombined sources
ChainiPRO_00002103252 – 117Transcription elongation factor SPT4Add BLAST116

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanineCombined sources1

Keywords - PTMi

Acetylation

Proteomic databases

EPDiP63272
MaxQBiP63272
PaxDbiP63272
PeptideAtlasiP63272
PRIDEiP63272

PTM databases

iPTMnetiP63272
PhosphoSitePlusiP63272

Expressioni

Tissue specificityi

Widely expressed.2 Publications

Gene expression databases

BgeeiENSG00000213246
CleanExiHS_SUPT4H1
ExpressionAtlasiP63272 baseline and differential
GenevisibleiP63272 HS

Organism-specific databases

HPAiHPA059748

Interactioni

Subunit structurei

Interacts with SUPT5H 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 HRMT1L2/PRMT1, HTATSF1/TATSF1, RNGTT/CAP1A, SKB1/PRMT5, SUPT6H, and can interact with PIN1.7 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
SUPT5HO0026711EBI-727250,EBI-710464

GO - Molecular functioni

  • protein heterodimerization activity Source: UniProtKB
  • RNA polymerase II core binding Source: GO_Central

Protein-protein interaction databases

BioGridi112695, 28 interactors
CORUMiP63272
DIPiDIP-40644N
IntActiP63272, 8 interactors
MINTiP63272
STRINGi9606.ENSP00000225504

Structurei

Secondary structure

1117
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi3 – 5Combined sources3
Beta strandi8 – 10Combined sources3
Beta strandi13 – 16Combined sources4
Turni17 – 19Combined sources3
Beta strandi21 – 24Combined sources4
Helixi25 – 31Combined sources7
Turni34 – 36Combined sources3
Helixi37 – 40Combined sources4
Helixi46 – 52Combined sources7
Beta strandi53 – 55Combined sources3
Beta strandi57 – 64Combined sources8
Helixi66 – 68Combined sources3
Helixi70 – 74Combined sources5
Beta strandi82 – 89Combined sources8
Helixi95 – 103Combined sources9

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3H7HX-ray1.55A2-117[»]
5OIKelectron microscopy3.70Y1-117[»]
ProteinModelPortaliP63272
SMRiP63272
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP63272

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni2 – 40Interaction with SUPT5HAdd BLAST39

Sequence similaritiesi

Belongs to the SPT4 family.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri16 – 36C4-typeSequence analysisAdd BLAST21

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG3490 Eukaryota
COG5204 LUCA
GeneTreeiENSGT00390000018559
HOGENOMiHOG000172685
HOVERGENiHBG055988
InParanoidiP63272
KOiK15171
OMAiVRGMYAV
OrthoDBiEOG091G0NIU
PhylomeDBiP63272
TreeFamiTF300105

Family and domain databases

CDDicd07973 Spt4, 1 hit
Gene3Di3.30.40.210, 1 hit
InterProiView protein in InterPro
IPR029040 RPABC4/Spt4
IPR009287 Spt4
IPR022800 Spt4/RpoE2_Znf
IPR038510 Spt4_sf
PANTHERiPTHR12882 PTHR12882, 1 hit
PfamiView protein in Pfam
PF06093 Spt4, 1 hit
PIRSFiPIRSF025023 Spt4, 1 hit
SMARTiView protein in SMART
SM01389 Spt4, 1 hit
SUPFAMiSSF63393 SSF63393, 1 hit

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P63272-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MALETVPKDL RHLRACLLCS LVKTIDQFEY DGCDNCDAYL QMKGNREMVY
60 70 80 90 100
DCTSSSFDGI IAMMSPEDSW VSKWQRVSNF KPGVYAVSVT GRLPQGIVRE
110
LKSRGVAYKS RDTAIKT
Length:117
Mass (Da):13,193
Last modified:October 11, 2004 - v1
Checksum:i09EDF007501D0F03
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti95 – 117QGIVR…TAIKT → HAKDSRSNVNKYEPRESSEG HDTCLASLFHSLRHSNSLFA L in BAC85230 (PubMed:14702039).CuratedAdd BLAST23

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U38818 mRNA Translation: AAB18674.1
U38817 mRNA Translation: AAB18675.1
U43923 mRNA Translation: AAB07814.1
AK129758 mRNA Translation: BAC85230.1
AK311986 mRNA Translation: BAG34925.1
CR407663 mRNA Translation: CAG28591.1
CH471109 Genomic DNA Translation: EAW94464.1
CH471109 Genomic DNA Translation: EAW94466.1
BC002802 mRNA Translation: AAH02802.1
CCDSiCCDS11606.1
RefSeqiNP_003159.1, NM_003168.2
UniGeneiHs.439481
Hs.718477

Genome annotation databases

EnsembliENST00000225504; ENSP00000225504; ENSG00000213246
ENST00000580947; ENSP00000462670; ENSG00000213246
GeneIDi6827
KEGGihsa:6827
UCSCiuc002iwe.3 human

Similar proteinsi

Entry informationi

Entry nameiSPT4H_HUMAN
AccessioniPrimary (citable) accession number: P63272
Secondary accession number(s): B2R4X8
, D3DTZ4, Q16550, Q62387, Q6ZP89
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 11, 2004
Last sequence update: October 11, 2004
Last modified: May 23, 2018
This is version 132 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 17
    Human chromosome 17: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families

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