To improve security and privacy, we are moving our web pages and services from HTTP to HTTPS.
To give users of web services time to transition to HTTPS, we will support separate HTTP and HTTPS services until the end of 2017.
From January 2018 most HTTP traffic will be automatically redirected to HTTPS. [more...]
View this page in https
PROSITE documentation PDOC00383 [for PROSITE entry PS00466]

Zinc finger TFIIS-type signature and profile





Description

In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least eight different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, -IIH and -IIS [1].

During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. Such 'backtracking' involved extrusion of the RNA 3'-end into the pore, and can lead to transcriptional arrest. Escape from arrest requires cleavage of the extruded RNA with the help of TFIIS [2]. TFIIS is a protein of about 300 amino acids. It contains two conserved regions, a central domain which is required for Pol II binding and a C-terminal C4-type zinc finger essential for RNA cleavage. The zinc finger folds in a conformation termed a 'zinc ribbon' (see <PDB:1TFI>) [3] characterized by a three-stranded antiparallel β-sheet and two β-hairpins. A backbone model for Pol II-TFIIS complex was obtained from X-ray analysis. It shows that a β hairpin protrudes from the zinc finger and complements the pol II active site [4].

The TFIIS zinc finger is also found in the following proteins:

  • Eukaryotic and archebacterial RNA polymerase subunits of the 15 Kd / M family (see <PDOC00790>).
  • Vaccinia virus RNA polymerase 30 Kd subunit (rpo30) [5].
  • African swine fever virus protein I243L [6].

The pattern we developed starts at the first cysteine of the zinc finger and ends at the last one. We also developed a profile which spans the whole structural domain.

Last update:

April 2006 / Pattern revised.

Technical section

PROSITE methods (with tools and information) covered by this documentation:

ZF_TFIIS_1, PS00466; Zinc finger TFIIS-type signature  (PATTERN)

ZF_TFIIS_2, PS51133; Zinc finger TFIIS-type profile  (MATRIX)


References

1AuthorsHirashima S., Hirai H., Nakanishi Y., Natori S.
TitleMolecular cloning and characterization of cDNA for eukaryotic transcription factor S-II.
SourceJ. Biol. Chem. 263:3858-3863(1988).
PubMed ID3346229

2AuthorsWind M., Reines D.
TitleTranscription elongation factor SII.
SourceBioessays 22:327-336(2000).
PubMed ID10723030
DOI10.1002/(SICI)1521-1878(200004)22:4<327::AID-BIES3>3.0.CO;2-4

3AuthorsQian X., Jeon C., Yoon H., Agarwal K., Weiss M.A.
TitleStructure of a new nucleic-acid-binding motif in eukaryotic transcriptional elongation factor TFIIS.
SourceNature 365:277-279(1993).
PubMed ID7626141
DOI10.1038/365277a0;

4AuthorsKettenberger H., Armache K.J., Cramer P.
TitleArchitecture of the RNA polymerase II-TFIIS complex and implications for mRNA cleavage.
SourceCell 114:347-357(2003).
PubMed ID12914699

5AuthorsAhn B.-Y., Gershon P.D., Jones E.V., Moss B.
TitleIdentification of rpo30, a vaccinia virus RNA polymerase gene with structural similarity to a eucaryotic transcription elongation factor.
SourceMol. Cell. Biol. 10:5433-5441(1990).
PubMed ID2398897

6AuthorsRodriguez J.M., Salas M.L., Vinuela E.
TitleGenes homologous to ubiquitin-conjugating proteins and eukaryotic transcription factor SII in African swine fever virus.
SourceVirology 186:40-52(1992).
PubMed ID1309282



PROSITE is copyright. It is produced by the SIB Swiss Institute Bioinformatics. There are no restrictions on its use by non-profit institutions as long as its content is in no way modified. Usage by and for commercial entities requires a license agreement. For information about the licensing scheme send an email to
Prosite License or see: prosite_license.html.

Miscellaneous

View entry in original PROSITE document format
View entry in raw text format (no links)