Hello,
Nowadays I'm working on nuclear hormone receptor responsable elements.
Especially thyroid hormone receptor.
I understand that It shows common feature like forms mono-, di- (homo/hetro) formation by themselfs or with RXR.
And also they response to the sequence like RGGTCA in the way of direct repeat, invert repeat etc.
The main problem is that all the other kinds of nuclear hormone receptor seems to have simillar fetures. and also even the THR itself response to variable sequence.
So, how can i predict the response element even they shares very simillar nature? (even with the different type of receptor. like estrogen receptor.)
And the second question is then,
If they share the common response sequence, should i believe the motif search from NUBIscan or NHR scan software?
Thanks for your interest to this topic.
The simple answer is No. Some do share response elements like the glucocorticoid receptor an the Progesterone receptor but it is more complicated than this and has to do with the structure of chromatin around the RE, The Estrogen receptor has a different RE and I think the thyroid receptor has a unique element.
Pancharatnam Jeyasuria // Thanks for your answer.
anyway, does complicate means theres more factors envolved in the response element sequence determination? except consensus sequence?
actually, i read some reviews about these entire nuclear receptor superfamiliy. and the consensus sequence for THR are told as AGGACA, AGGTCA, RGGTCA etc.
And if the paper is right the PPARg, ER, RXR has the consensus sequence as (A/R)GGTCA. It is why i'm telling it's simillar. the only difference between them are the dimer form of these are recognizing DR-1 and IR3.
Although THR recognize the IR0/6, DR0/4, ER6/8.
may these spacer configuration are the critical factor for site determination?
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