Iron response element
Encyclopedia
The Iron response element or Iron-responsive element (IRE) is a short conserved stem-loop
which is bound by iron response proteins
(IRPs, also named IRE-BP or IRBP). The IRE is found in UTRs (untranslated regions) of various mRNAs whose products are involved in iron metabolism. For example, the mRNA of ferritin
(an iron storage protein) contains one IRE in its 5' UTR. When iron concentration is low, IRPs bind the IRE in the ferritin mRNA leading to reduced translation rates. In contrast, binding to multiple IREs in the 3' UTR
of the transferrin receptor
(involved in iron acquisition) leads to increased mRNA stability.
In high iron conditions in humans, IRP1 binds with an iron complex and adopts an aconitase conformation unsuitable for IRE binding. In contrast, IRP2 is degraded in high iron conditions. There is variation in affinity between different IREs and different IRPs. Some IREs can also be effected by alternative gene splicing.
The upper helix of the known IREs shows stronger conservation of structure compared to the lower helix. The bases composing the helixes are variable. The mid-stem bulged C is a highly characteristic feature (though this has been seen to be a G in the ferritin IRE for lobster.) The apical loop of the known IREs all consist of either the AGA or AGU triplet. This is pinched by a paired G-C and there is additionally a bulged U, C or A in the upper helix. The crystal structure and NMR data show a bulged U in the lower stem of the ferritin IRE. This is consistent with the predicted secondary structure. IREs in many other mRNAs do not have any support for this bulged U. Consequently two RFAM models have been created for the IRE - one with a bulged U and one without.
Genes known to contain IREs include FTH1, FTL, TFRC, ALAS2, Sdhb, AC02, Hao1, SLC11A2, NDUFS1, Slc40a1 CDC42BPA, CDC14A, EPAS1. Many of these genes have clear and direct roles in iron metabolism. Others show a less obvious connection. ACO2 encodes an isomerase catalysing the reversible isomerisation of citrate and iso-citrate. EPAS1 encodes a transcription factor involved in complex oxygen sensing pathways by the induction of oxygen regulated genes under low oxygen conditions. CDC42BPA encodes a kinase with a role in cytoskeletal reorganisation. CDC14A encodes a dual-specificity phosphatase implicated in cell cycle control and also interacts with interphase centrosomes.
The IRE is found over a diverse taxonomic range - mainly eukaryotes but not in plants.
Stem-loop
Stem-loop intramolecular base pairing is a pattern that can occur in single-stranded DNA or, more commonly, in RNA. The structure is also known as a hairpin or hairpin loop. It occurs when two regions of the same strand, usually complementary in nucleotide sequence when read in opposite directions,...
which is bound by iron response proteins
Iron-responsive element binding protein
The iron-responsive element-binding proteins, also known as IRE-BP and IRBP and IRP, bind to iron-responsive elements in the regulation of human iron metabolism.-Function:...
(IRPs, also named IRE-BP or IRBP). The IRE is found in UTRs (untranslated regions) of various mRNAs whose products are involved in iron metabolism. For example, the mRNA of ferritin
Ferritin
Ferritin is a ubiquitous intracellular protein that stores iron and releases it in a controlled fashion. The amount of ferritin stored reflects the amount of iron stored. The protein is produced by almost all living organisms, including bacteria, algae and higher plants, and animals...
(an iron storage protein) contains one IRE in its 5' UTR. When iron concentration is low, IRPs bind the IRE in the ferritin mRNA leading to reduced translation rates. In contrast, binding to multiple IREs in the 3' UTR
Three prime untranslated region
In molecular genetics, the three prime untranslated region is a particular section of messenger RNA . It is preceeded by the coding region....
of the transferrin receptor
Transferrin receptor
Transferrin receptor is a carrier protein for transferrin. It is needed for the import of iron into the cell and is regulated in response to intracellular iron concentration...
(involved in iron acquisition) leads to increased mRNA stability.
In high iron conditions in humans, IRP1 binds with an iron complex and adopts an aconitase conformation unsuitable for IRE binding. In contrast, IRP2 is degraded in high iron conditions. There is variation in affinity between different IREs and different IRPs. Some IREs can also be effected by alternative gene splicing.
The upper helix of the known IREs shows stronger conservation of structure compared to the lower helix. The bases composing the helixes are variable. The mid-stem bulged C is a highly characteristic feature (though this has been seen to be a G in the ferritin IRE for lobster.) The apical loop of the known IREs all consist of either the AGA or AGU triplet. This is pinched by a paired G-C and there is additionally a bulged U, C or A in the upper helix. The crystal structure and NMR data show a bulged U in the lower stem of the ferritin IRE. This is consistent with the predicted secondary structure. IREs in many other mRNAs do not have any support for this bulged U. Consequently two RFAM models have been created for the IRE - one with a bulged U and one without.
Genes known to contain IREs include FTH1, FTL, TFRC, ALAS2, Sdhb, AC02, Hao1, SLC11A2, NDUFS1, Slc40a1 CDC42BPA, CDC14A, EPAS1. Many of these genes have clear and direct roles in iron metabolism. Others show a less obvious connection. ACO2 encodes an isomerase catalysing the reversible isomerisation of citrate and iso-citrate. EPAS1 encodes a transcription factor involved in complex oxygen sensing pathways by the induction of oxygen regulated genes under low oxygen conditions. CDC42BPA encodes a kinase with a role in cytoskeletal reorganisation. CDC14A encodes a dual-specificity phosphatase implicated in cell cycle control and also interacts with interphase centrosomes.
The IRE is found over a diverse taxonomic range - mainly eukaryotes but not in plants.