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Protein

Transcription elongation factor SPT4

Gene

spt-4

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

May function as a component of the DRB sensitivity-inducing factor complex (DSIF complex), which regulates transcription elongation by RNA polymerase II. DSIF may enhance transcriptional pausing at sites proximal to the promoter, which may in turn facilitate the assembly of an elongation competent RNA polymerase II complex.1 Publication

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri15 – 35C4-typeSequence analysisAdd BLAST21

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Activator, Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-CEL-112387. Elongation arrest and recovery.
R-CEL-113418. Formation of the Early Elongation Complex.
R-CEL-674695. RNA Polymerase II Pre-transcription Events.
R-CEL-6796648. TP53 Regulates Transcription of DNA Repair Genes.
R-CEL-75955. RNA Polymerase II Transcription Elongation.

Names & Taxonomyi

Protein namesi
Recommended name:
Transcription elongation factor SPT4
Alternative name(s):
DRB sensitivity-inducing factor small subunit
Short name:
DSIF small subunit
Gene namesi
Name:spt-4
ORF Names:F54C4.2
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componenti: Chromosome III

Organism-specific databases

WormBaseiF54C4.2; CE19891; WBGene00005014; spt-4.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002103341 – 120Transcription elongation factor SPT4Add BLAST120

Proteomic databases

EPDiQ9TZ93.
PaxDbiQ9TZ93.
PeptideAtlasiQ9TZ93.
PRIDEiQ9TZ93.

Expressioni

Gene expression databases

BgeeiWBGene00005014.

Interactioni

Subunit structurei

Interacts with spt-5 to form DSIF. DSIF interacts with RNA polymerase II and with the positive transcription elongation factor b complex (P-TEFb complex), which is composed of cdk-9 and cyclin-T (cit-1.1 or cit-1.2) (By similarity).By similarity

Protein-protein interaction databases

BioGridi40448. 1 interactor.
DIPiDIP-25841N.
MINTiMINT-1067406.
STRINGi6239.F54C4.2.

Structurei

3D structure databases

ProteinModelPortaliQ9TZ93.
SMRiQ9TZ93.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 39Interaction with spt-5By similarityAdd BLAST39

Sequence similaritiesi

Belongs to the SPT4 family.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri15 – 35C4-typeSequence analysisAdd BLAST21

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG3490. Eukaryota.
COG5204. LUCA.
GeneTreeiENSGT00390000018559.
HOGENOMiHOG000172685.
InParanoidiQ9TZ93.
KOiK15171.
OMAiVRGMYAV.
OrthoDBiEOG091G0NIU.
PhylomeDBiQ9TZ93.

Family and domain databases

CDDicd07973. Spt4. 1 hit.
InterProiIPR029040. RPABC4/Spt4.
IPR009287. Spt4.
IPR016046. Spt4-like.
IPR022800. Spt4/RpoE2_Znf.
[Graphical view]
PANTHERiPTHR12882. PTHR12882. 1 hit.
PfamiPF06093. Spt4. 1 hit.
[Graphical view]
PIRSFiPIRSF025023. Spt4. 1 hit.
SMARTiSM01389. Spt4. 1 hit.
[Graphical view]
SUPFAMiSSF63393. SSF63393. 1 hit.

Sequencei

Sequence statusi: Complete.

Q9TZ93-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSASVPADLR NLRACLLCSL VKSVESFQKE GCENCEDVLH LKGDEEKVYD
60 70 80 90 100
CTSANYDGMI AAMSNNESWV CKWQKMQRKV KGMYAISVSG VLPNNIVSEL
110 120
KSLGVRYKPN QRDYSTQFKK
Length:120
Mass (Da):13,536
Last modified:May 1, 2000 - v1
Checksum:iE48D2A78789D5467
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FO080712 Genomic DNA. Translation: CCD66087.1.
PIRiT33605.
RefSeqiNP_497135.1. NM_064734.4.
UniGeneiCel.20527.

Genome annotation databases

EnsemblMetazoaiF54C4.2; F54C4.2; WBGene00005014.
GeneIDi175172.
KEGGicel:CELE_F54C4.2.
UCSCiF54C4.2. c. elegans.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
FO080712 Genomic DNA. Translation: CCD66087.1.
PIRiT33605.
RefSeqiNP_497135.1. NM_064734.4.
UniGeneiCel.20527.

3D structure databases

ProteinModelPortaliQ9TZ93.
SMRiQ9TZ93.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi40448. 1 interactor.
DIPiDIP-25841N.
MINTiMINT-1067406.
STRINGi6239.F54C4.2.

Proteomic databases

EPDiQ9TZ93.
PaxDbiQ9TZ93.
PeptideAtlasiQ9TZ93.
PRIDEiQ9TZ93.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiF54C4.2; F54C4.2; WBGene00005014.
GeneIDi175172.
KEGGicel:CELE_F54C4.2.
UCSCiF54C4.2. c. elegans.

Organism-specific databases

CTDi175172.
WormBaseiF54C4.2; CE19891; WBGene00005014; spt-4.

Phylogenomic databases

eggNOGiKOG3490. Eukaryota.
COG5204. LUCA.
GeneTreeiENSGT00390000018559.
HOGENOMiHOG000172685.
InParanoidiQ9TZ93.
KOiK15171.
OMAiVRGMYAV.
OrthoDBiEOG091G0NIU.
PhylomeDBiQ9TZ93.

Enzyme and pathway databases

ReactomeiR-CEL-112387. Elongation arrest and recovery.
R-CEL-113418. Formation of the Early Elongation Complex.
R-CEL-674695. RNA Polymerase II Pre-transcription Events.
R-CEL-6796648. TP53 Regulates Transcription of DNA Repair Genes.
R-CEL-75955. RNA Polymerase II Transcription Elongation.

Miscellaneous databases

PROiQ9TZ93.

Gene expression databases

BgeeiWBGene00005014.

Family and domain databases

CDDicd07973. Spt4. 1 hit.
InterProiIPR029040. RPABC4/Spt4.
IPR009287. Spt4.
IPR016046. Spt4-like.
IPR022800. Spt4/RpoE2_Znf.
[Graphical view]
PANTHERiPTHR12882. PTHR12882. 1 hit.
PfamiPF06093. Spt4. 1 hit.
[Graphical view]
PIRSFiPIRSF025023. Spt4. 1 hit.
SMARTiSM01389. Spt4. 1 hit.
[Graphical view]
SUPFAMiSSF63393. SSF63393. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiSPT4H_CAEEL
AccessioniPrimary (citable) accession number: Q9TZ93
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 22, 2005
Last sequence update: May 1, 2000
Last modified: November 30, 2016
This is version 100 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.