H
IPR010992

Integration host factor (IHF)-like DNA-binding domain superfamily

InterPro entry
Short nameIHF-like_DNA-bd_dom_sf
Overlapping entries
 

Description

Integration host factor (IHF) (
IPR005684
,
IPR005685
) is a small heterodimeric protein that binds the minor groove of DNA in a sequence-specific manner and induces a large bend. This bending stabilises distinct DNA conformations that are required during several bacterial processes, such as recombination, transposition, replication and transcription
[1]
. The core structure of IHF consists of a partly opened 4-helical bundle that is capped with a β-sheet.

Prokaryotic protein HU and the bacteriophage SPO1 transcription factor TF1 are closely related to IHF. These proteins are collectively referred to as type II DNA-binding proteins (DBPII), forming a group of basic, dimeric proteins found in all bacteria that are able to bind DNA to induce and stabilise DNA bending. HU plays a structural role in replication initiation, transcription regulation, site-specific recombination, and the compaction of the bacterial genome
[2]
. TF1 is essential for viral multiplication
[3]
.

The DNA-binding domain of the TraM protein (
IPR007925
), an essential component of the DNA transfer machinery of the conjugative resistance plasmid R1, appears to have a similar structure to DBPII
[4]
.

References

1.Integration host factor: putting a twist on protein-DNA recognition. Lynch TW, Read EK, Mattis AN, Gardner JF, Rice PA. J. Mol. Biol. 330, 493-502, (2003). View articlePMID: 12842466

2.Flexible DNA bending in HU-DNA cocrystal structures. Swinger KK, Lemberg KM, Zhang Y, Rice PA. EMBO J. 22, 3749-60, (2003). View articlePMID: 12853489

3.Solution structure of a mutant of transcription factor 1: implications for enhanced DNA binding. Liu W, Vu HM, Geiduschek EP, Kearns DR. J. Mol. Biol. 302, 821-30, (2000). View articlePMID: 10993726

4.Solution structure of the DNA-binding domain of TraM. Stockner T, Plugariu C, Koraimann G, Hogenauer G, Bermel W, Prytulla S, Sterk H. Biochemistry 40, 3370-7, (2001). View articlePMID: 11258958

GO terms

biological process

  • None

molecular function

cellular component

  • None

Cross References

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