CadC binding domain gene transcriptions

Associate Editor(s)-in-Chief: Henry A. Hoff

"Dimerization of [cadaverine C-terminal] CadC enables the binding of two DBDs to the two Cad1 consensus target sites."^[1]

Consensus sequences

"Altogether, the specific contacts observed suggest a consensus binding motif of 5′-T-T-A-x-x-x-x-T-3′."^[1]

"The DNA consensus sequence 5′-T-T-A-x-x-x-x-T-3′ is present once in the quasi-palindromic Cad1 17-mer DNA, consistent with the formation of a 1:1 complex. However, a second consensus facilitates the formation of the 2:1 complex of CadC with Cad1 41-mer DNA as evidenced by the CadC model with the minimal Cad1 26-mer DNA that spans the two AT-rich regions, i.e. consensus sites."^[1]

Hypotheses

A1BG has no CadC binding domain in either promoter.
A1BG is not transcribed by a CadC binding domain.
CadC binding domain does not participate in the transcription of A1BG.

Samplings

Copying the cadaverine C-terminal binding domain consensus sequence 5'-T-T-A-x-x-x-x-T-3' and putting the sequence in "⌘F" finds one location between ZNF497 and A1BG or four locations between ZSCAN22 and A1BG as can be found by the computer programs.

For the Basic programs testing consensus sequence 5'-TTANNNNT-3' (starting with SuccessablesCadC.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 5'-TTANNNNT-3', 24, 5'-TTATTAAT-3' at 4227, 5'-TTATTATT-3' at 4224, '-TTATCTTT-3' at 4081, 5'-TTATTTAT-3' at 4074, 5'-TTAGGGTT-3' at 3978, 5'-TTACCCTT-3' at 3662, 5'-TTATGACT-3' at 3542, 5'-TTAACTAT-3' at 3360, 5'-TTATTTGT-3' at 3337, 5'-TTACCGAT-3' at 3007, 5'-TTACGAAT-3' at 2935, 5'-TTATATAT-3' at 2872, 5'-TTATATGT-3' at 2641, 5'-TTATCATT-3' at 2501, 5'-TTATGTTT-3' at 2306, 5'-TTATGTTT-3' at 1879, 5'-TTATCTCT-3' at 1712, 5'-TTACGGTT-3' at 1636, 5'-TTATGTCT-3' at 1567, 5'-TTAGTCCT-3' at 985, 5'-TTATGTTT-3' at 770, 5'-TTATGTTT-3' at 636, 5'-TTATGCTT-3' at 493, 5'-TTAAGATT-3' at 9, and complements.
negative strand, positive direction, looking for 5'-TTANNNNT-3', 9, 5'-TTATAATT-3' at 4169, 5'-TTATTGAT-3' at 4162, 5'-TTAATCAT-3' at 4148, 5'-TTATTAAT-3' at 4145, 5'-TTATCACT-3' at 4126, 5'-TTATGACT-3' at 3029, 5'-TTAGGGCT-3' at 2768, 5'-TTAAAATT-3' at 2447, 5'-TTAAACAT-3' at 2139.
positive strand, negative direction, looking for 5'-TTANNNNT-3', 6, 5'-TTATTAAT-3' at 4540, 5'-TTAAAAAT-3' at 3355, 5'-TTAGATAT-3' at 2982, 5'-TTATCTTT-3' at 1733, 5'-TTAAGTGT-3' at 322, 5'-TTAAGAAT-3' at 196.
positive strand, positive direction, looking for 5'-TTANNNNT-3', 5, 5'-TTACTCCT-3' at 4097, 5'-TTATACCT-3' at 3163, 5'-TTATCTTT-3' at 2629, 5'-TTAAAATT-3' at 2443, 5'-TTACACTT-3' at 231.
complement, negative strand, negative direction, looking for 5'-TTTTTTTT-3', 0.
complement, negative strand, positive direction, looking for 5'-TTTTTTTT-3', 0.
complement, positive strand, negative direction, looking for 5'-TTTTTTTT-3', 0.
complement, positive strand, positive direction, looking for 5'-TTTTTTTT-3', 0.
inverse complement, negative strand, negative direction, looking for 5'-TTTTTTTT-3', 0.
inverse complement, negative strand, positive direction, looking for 5'-TTTTTTTT-3', 0.
inverse complement, positive strand, negative direction, looking for 5'-TTTTTTTT-3', 0.
inverse complement, positive strand, positive direction, looking for 5'-TTTTTTTT-3', 0.
inverse negative strand, negative direction, looking for 5'-AAAAAAAA-3', 0.
inverse negative strand, positive direction, looking for 5'-AAAAAAAA-3', 0.
inverse positive strand, negative direction, looking for 5'-AAAAAAAA-3', 0.
inverse positive strand, positive direction, looking for 5'-AAAAAAAA-3', 0.

CadC core promoters

Positive strand, negative direction: 5'-TTATTAAT-3' at 4540, and complement.

CadC proximal promoters

Negative strand, negative direction: 24, 5'-TTATTAAT-3' at 4227, 5'-TTATTATT-3' at 4224, and complements.

Negative strand, positive direction: 5'-TTATAATT-3' at 4169, 5'-TTATTGAT-3' at 4162, 5'-TTAATCAT-3' at 4148, 5'-TTATTAAT-3' at 4145, 5'-TTATCACT-3' at 4126, and complements.

Positive strand, positive direction: 5'-TTACTCCT-3' at 4097, and complement.

CadC distal promoters

Negative strand, negative direction: 5'-TTATCTTT-3' at 4081, 5'-TTATTTAT-3' at 4074, 5'-TTAGGGTT-3' at 3978, 5'-TTACCCTT-3' at 3662, 5'-TTATGACT-3' at 3542, 5'-TTAACTAT-3' at 3360, 5'-TTATTTGT-3' at 3337, 5'-TTACCGAT-3' at 3007, 5'-TTACGAAT-3' at 2935, 5'-TTATATAT-3' at 2872, 5'-TTATATGT-3' at 2641, 5'-TTATCATT-3' at 2501, 5'-TTATGTTT-3' at 2306, 5'-TTATGTTT-3' at 1879, 5'-TTATCTCT-3' at 1712, 5'-TTACGGTT-3' at 1636, 5'-TTATGTCT-3' at 1567, 5'-TTAGTCCT-3' at 985, 5'-TTATGTTT-3' at 770, 5'-TTATGTTT-3' at 636, 5'-TTATGCTT-3' at 493, 5'-TTAAGATT-3' at 9, and complements.

Negative strand, positive direction: 5'-TTATGACT-3' at 3029, 5'-TTAGGGCT-3' at 2768, 5'-TTAAAATT-3' at 2447, 5'-TTAAACAT-3' at 2139, and complements.

Positive strand, negative direction: 5'-TTAAAAAT-3' at 3355, 5'-TTAGATAT-3' at 2982, 5'-TTATCTTT-3' at 1733, 5'-TTAAGTGT-3' at 322, 5'-TTAAGAAT-3' at 196, and complements.

Positive strand, positive direction: 5'-TTATACCT-3' at 3163, 5'-TTATCTTT-3' at 2629, 5'-TTAAAATT-3' at 2443, 5'-TTACACTT-3' at 231, and complements.

Acknowledgements

The content on this page was first contributed by: Henry A. Hoff.

References

↑ ^1.0 ^1.1 ^1.2 Andreas Schlundt, Sophie Buchner, Robert Janowski, Thomas Heydenreich, Ralf Heermann, Jürgen Lassak, Arie Geerlof, Ralf Stehle, Dierk Niessing, Kirsten Jung & Michael Sattler (21 April 2017). "Structure-function analysis of the DNA-binding domain of a transmembrane transcriptional activator". Scientific Reports. 7: 1051. doi:10.1038/s41598-017-01031-9. PMID 28432336. Retrieved 28 August 2020.

External links

[Schlundt-1] 1.0 ^1.1 ^1.2 Andreas Schlundt, Sophie Buchner, Robert Janowski, Thomas Heydenreich, Ralf Heermann, Jürgen Lassak, Arie Geerlof, Ralf Stehle, Dierk Niessing, Kirsten Jung & Michael Sattler (21 April 2017). "Structure-function analysis of the DNA-binding domain of a transmembrane transcriptional activator". Scientific Reports. 7: 1051. doi:10.1038/s41598-017-01031-9. PMID 28432336. Retrieved 28 August 2020.

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Transcription resources	A1BG gene transcription core promoters A1BG gene transcriptions A1BG regulatory elements and regions A1BG response element gene transcriptions A1BG response element negative results A1BG response element positive results ABA-response element gene transcriptions Abf1 regulatory factor gene transcriptions A box gene transcriptions Abscisic acid-responsive elements ACGT-containing element gene transcriptions Activating protein gene transcriptions Activating transcription factor gene transcriptions Adenylate–uridylate rich element gene transcriptions Adr1p gene transcriptions Aft1p gene transcriptions AGC box gene transcriptions AGCE gene transcriptions Alpha-amylase conserved element gene transcriptions Amino acid response element gene transcriptions AARE-like Androgen response element gene transcriptions Angiotensinogen core promoter element gene transcriptions Antioxidant-electrophile responsive element gene transcriptions AP-2 (Roesler) elements ATA box gene 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transcriptions Gcn4p gene transcriptions Gcr1p gene transcriptions Gene expressions General factor II D gene transcriptions General regulatory factors General transcription factor II A gene transcriptions General transcription factor II B gene transcriptions General transcription factor II D gene transcriptions General transcription factor II F gene transcriptions General transcription factor II H gene transcriptions General transcription factor gene transcriptions Gene transcriptions GGC triplet gene transcriptions Gibberellin responsive element gene transcriptions GLM box gene transcriptions Glucocorticoid response element gene transcriptions Grainy head gene transcriptions Grainy head transcription factor gene transcriptions Growth hormone response element gene transcriptions GT boxes Hac1p gene transcriptions Hair color gene expressions H and ACA box gene transcriptions H box gene transcriptions Heat-responsive element gene transcriptions Heat shock elements Hex sequence gene transcriptions HMG box gene transcriptions HNF gene transcriptions Homeobox gene transcriptions Hsf1p gene transcriptions HY box gene transcriptions Hybrid C, A boxes Hybrid C, G boxes Hybrid C, T boxes Hypoxia-inducible factor gene transcriptions Hypoxia response elements I box gene transcriptions Immunoglobulin like domain containing family Initiator element gene transcriptions Initiator-like element gene transcriptions Inositol/choline-responsive elements Interaction gene transcriptions Interferon regulatory factors Inverse copy gene transcriptions Jasmonic acid-responsive element gene transcriptions K-boxes Kozak sequence gene transcriptions Kruppel-associated box gene transcriptions Krüppel-like factor gene transcriptions L box gene transcriptions Leu3 gene transcriptions M35 box gene transcriptions MADS box gene transcriptions Maf recognition element gene transcriptions M box gene transcriptions M-CAT boxes Mcm1 regulatory factor gene transcriptions Met3 gene transcriptions Met31p box gene transcriptions Metal responsive element gene transcriptions Middle sporulation element gene transcriptions Mig1p gene transcriptions Model samplings Motif ten element gene transcriptions Msn2,4p gene transcriptions Musashi binding element gene transcriptions MYB recognition element gene transcriptions Myelocytomatosis transcription factor gene transcriptions Myocyte enhancer factor gene transcriptions N-boxes Nanos/Pumilio response element Ndt80p gene transcriptions Nuclear factor 1 Nuclear factor 𝜿B Nuclear factor gene transcriptions Nuclear factor of activated T cell gene transcriptions (NFAT) Nuclear factor Y gene transcriptions Nutrient-sensing response element gene transcriptions Oaf1p gene transcriptions ORE1 binding site gene transcriptions p53 response element gene transcriptions P63 DNA-binding site gene transcriptions P box gene transcriptions Pdr1,3p gene transcriptions Peroxisome proliferator hormone response element gene transcriptions Phosphate 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transcriptions Transcription factory gene transcriptions Transcription start site gene transcriptions Translational control sequence gene transcriptions Tryptophan residue U box gene transcriptions Unfolded protein response element gene transcriptions Upstream repressor site 1 Upstream response element gene transcriptions Upstream stimulatory factor gene transcriptions UTR promoter gene transcriptions V and P box gene transcriptions V box gene transcriptions Vhr1p gene transcriptions Vitamin D response element gene transcriptions W box gene transcriptions X box gene transcriptions Xbp1p gene transcriptions X core promoter element gene transcriptions Xenobiotic response element gene transcriptions Xenobiotic responsive element gene transcriptions Yap1p,2p gene transcriptions Y box gene transcriptions YY1 gene transcriptions Zap1p gene transcriptions Z box gene transcriptions Zinc responsive element gene transcriptions

CadC binding domain gene transcriptions

Contents

Consensus sequences

Hypotheses

Samplings

CadC core promoters

CadC proximal promoters

CadC distal promoters

Acknowledgements

See also

References

External links

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CadC binding domain gene transcriptions

Consensus sequences

Hypotheses

Samplings

CadC core promoters

CadC proximal promoters

CadC distal promoters

Acknowledgements

See also

References

External links

Navigation menu

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