Met31p box gene transcriptions
Associate Editor(s)-in-Chief: Henry A. Hoff
"The transcriptional regulation of the sulfur amino acid pathway in Saccharomyces cerevisiae depends on a single activator, Met4p, whose function requires different combinations of the auxiliary factors Cbf1p, Met28p, Met31p and Met32p. The first description of how these factors cooperate to activate transcription was provided by the identification of the Cbf1–Met4–Met28 complex which is assembled on the regulatory region of the MET16 gene."[1]
Human genes
Gene expressions
Interactions
Two "independent domains within Met4p are required for its tethering to the AAACTGTG sequence by the Met28p, Met31p and Met32p proteins."[1]
The "bZIP domain of Met4p [is] necessary for the assembly of all the heteromeric complexes that have so far been demonstrated to allow the recruitment of Met4p to the promoter regions."[1]
Consensus sequences
"Both Met31p and Met32p bind to the 5′‐AAACTGTG‐3′ core sequence which is, besides the 5′‐TCACGTG‐3′ element, the second regulatory element known to be involved in the regulation of several MET genes (Thomas et al., 1989)."[1]
Binding site for
"Met28p does bind to the AAACTGTG sequence through its association with the high‐molecular‐weight complex."[1]
Both "Met4p and Met28p are capable of binding to the AAACTGTG motif found upstream of the MET28 gene when associated with either Met31p or Met32p."[1]
"The MET3 gene was chosen because its 5′ upstream region, like that of the MET28 gene, contains the AAACTGTG motif together with the TCACGTG sequence, the Cbf1p‐binding site (Thomas and Surdin‐Kerjan, 1997)."[1]
Complement copies
Inverse copies
"A visual inspection revealed the presence of a AAACTGTG motif at position −145 (numbered relative to the ATG initiation codon) upstream of the MET28 gene. It must be noted that, in this case, the motif is found in the opposite orientation."[1]
Complement-inverse copies
Enhancer activity
Promoter occurrences
Other "pathways are used to recruit Met4p on the 5′ upstream region of the two genes, MET3 and MET28. In these cases, Met4p is tethered to DNA through two alternative complexes associating Met4p with Met28p and either Met31p or Met32p. These complexes are formed over the AAACTGTG sequence, a cis‐acting element found upstream of several MET genes."[1]
"The 5′ upstream regions of both MET3 and MET28 genes comprise the AAACTGTG motif together with the Cbf1p DNA‐binding site, TCACGTG."[1]
Hypotheses
- A1BG has no Met regulatory elements in either promoter.
- A1BG is not transcribed by a Met regulatory element.
- No Met regulatory element participates in the transcription of A1BG.
Met31 samplings
Copying a responsive elements consensus sequence AAACTGTG and putting the sequence in "⌘F" finds none between ZNF497 and A1BG or none between ZSCAN22 and A1BG as can be found by the computer programs.
For the Basic programs testing consensus sequence AAACTGTG (starting with SuccessablesMet.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:
- negative strand, negative direction, looking for AAACTGTG, 0.
- positive strand, negative direction, looking for AAACTGTG, 1, AAACTGTG at 4400.
- positive strand, positive direction, looking for AAACTGTG, 0.
- negative strand, positive direction, looking for AAACTGTG, 0.
- complement, negative strand, negative direction, looking for TTTGACAC, 1, TTTGACAC at 4400.
- complement, positive strand, negative direction, looking for TTTGACAC, 0.
- complement, positive strand, positive direction, looking for TTTGACAC, 0.
- complement, negative strand, positive direction, looking for TTTGACAC, 0.
- inverse complement, negative strand, negative direction, looking for CACAGTTT, 0.
- inverse complement, positive strand, negative direction, looking for CACAGTTT, 0.
- inverse complement, positive strand, positive direction, looking for CACAGTTT, 0.
- inverse complement, negative strand, positive direction, looking for CACAGTTT, 0.
- inverse negative strand, negative direction, looking for GTGTCAAA, 0.
- inverse positive strand, negative direction, looking for GTGTCAAA, 0.
- inverse positive strand, positive direction, looking for GTGTCAAA, 0.
- inverse negative strand, positive direction, looking for GTGTCAAA, 0.
Met31 UTR gene transcriptions
Positive strand, negative direction: AAACTGTG at 4400.
Met31 random dataset samplings
- Metr0: 0.
- Metr1: 0.
- Metr2: 0.
- Metr3: 0.
- Metr4: 0.
- Metr5: 0.
- Metr6: 0.
- Metr7: 0.
- Metr8: 0.
- Metr9: 0.
- Metr0ci: 0.
- Metr1ci: 0.
- Metr2ci: 0.
- Metr3ci: 0.
- Metr4ci: 0.
- Metr5ci: 1, CACAGTTT at 3436.
- Metr6ci: 0.
- Metr7ci: 0.
- Metr8ci: 0.
- Metr9ci: 0.
Metr alternate (odds) (4560-2846) UTRs
- Metr5ci: CACAGTTT at 3436.
Metr arbitrary positive direction (odds) (4050-1) distal promoters
- Metr5ci: CACAGTTT at 3436.
Met31 analysis and results
"Met28p does bind to the AAACTGTG sequence through its association with the high‐molecular‐weight complex."[1]
| Reals or randoms | Promoters | direction | Numbers | Strands | Occurrences | Averages (± 0.1) |
|---|---|---|---|---|---|---|
| Reals | UTR | negative | 1 | 2 | 0.5 | 0.5 ± 0.5 (--0,+-1) |
| Randoms | UTR | arbitrary negative | 0 | 10 | 0 | 0.05 |
| Randoms | UTR | alternate negative | 1 | 10 | 0.1 | 0.05 |
| Reals | Core | negative | 0 | 2 | 0 | 0 |
| Randoms | Core | arbitrary negative | 0 | 10 | 0 | 0 |
| Randoms | Core | alternate negative | 0 | 10 | 0 | 0 |
| Reals | Core | positive | 0 | 2 | 0 | 0 |
| Randoms | Core | arbitrary positive | 0 | 10 | 0 | 0 |
| Randoms | Core | alternate positive | 0 | 10 | 0 | 0 |
| Reals | Proximal | negative | 0 | 2 | 0 | 0 |
| Randoms | Proximal | arbitrary negative | 0 | 10 | 0 | 0 |
| Randoms | Proximal | alternate negative | 0 | 10 | 0 | 0 |
| Reals | Proximal | positive | 0 | 2 | 0 | 0 |
| Randoms | Proximal | arbitrary positive | 0 | 10 | 0 | 0 |
| Randoms | Proximal | alternate positive | 0 | 10 | 0 | 0 |
| Reals | Distal | negative | 0 | 2 | 0 | 0 |
| Randoms | Distal | arbitrary negative | 0 | 10 | 0 | 0 |
| Randoms | Distal | alternate negative | 0 | 10 | 0 | 0 |
| Reals | Distal | positive | 0 | 2 | 0 | 0 |
| Randoms | Distal | arbitrary positive | 1 | 10 | 0.1 | 0.05 |
| Randoms | Distal | alternate positive | 0 | 10 | 0 | 0.05 |
Comparison:
The occurrence of a real Met31 is greater than the randoms. This suggests that the real Met31 is likely active or activable.
Met3 samplings
Copying a responsive elements consensus sequence TCACGTG and putting the sequence in "⌘F" finds none between ZNF497 and A1BG or none between ZSCAN22 and A1BG as can be found by the computer programs.
For the Basic programs testing consensus sequence TCACGTG (starting with SuccessablesMET3.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:
- Negative strand, negative direction: 0.
- Positive strand, negative direction: 0.
- Negative strand, positive direction: 0.
- Positive strand, positive direction: 0.
- inverse complement, negative strand, negative direction: 0.
- inverse complement, positive strand, negative direction: 0.
- inverse complement, negative strand, positive direction: 0.
- inverse complement, positive strand, positive direction: 0.
Acknowledgements
The content on this page was first contributed by: Henry A. Hoff.
See also
References
- ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 Pierre‐Louis Blaiseau and Dominique Thomas (2 November 1998). "Multiple transcriptional activation complexes tether the yeast activator Met4 to DNA". The EMBO Journal. 17: 6327–6336. doi:10.1093/emboj/17.21.6327.
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