TABLE 1.
Binding of MBD proteins to methylated DNA in gel shift experiments
| DNA probe | No. of MeCpGs | Sequencea | Bindingb
|
Reference | |||
|---|---|---|---|---|---|---|---|
| MBD1 | MBD2 | MBD3 | MBD4 | ||||
| GAM12 | 12 | GATCMGAMGAMGAMGAMGAMGAMGAMGAMGAMGAMGAMGATC | + | + | (+) | + | 27 |
| GAM5 | 5 | CTAGAAMGAMGTGCMGAAGCTMGACCAGTGMGTGCTAG | + | + | (+) | + | 27 |
| GAC | 0 | GATCCGACGACGACGACGACGACGACGACGACGACGACGATC | − | − | − | − | 27 |
| MeCG11 | 27 | GTACCCAAGMGMGMGCCTGGMGCCMGGGCMGGCTCCAAGMGMGMGCCTGGMGCCMGGCAAGMGMGMGCCTGGMGCCMGGGCMGGGTCCAAGMGMGMGCCTGGMGCCMGGCCMGGGMGCCAGGMGMGMGCTTGGGG | + | + | (+) | ND | 30 |
| CG11 | 0 | GTACCCAAGCGCGCGCCTGGCGCCCGGGCCGGCTCCAAGCGCGCGCCTGGCGCCCGGCAAGCGCGCGCCTGGCGCCCGGGCCGGGTCCAAGCGCGCGCCTGGCGCCCGGCCCGGGCGCCAGGCGCGCGCTTGGGG | − | − | − | ND | 30 |
| NB-Ss | 6 | ATGGCTGAGGACTGGCTGGACTGCCMGGCCCTGGGCCCTGGCTGGAAGMGCMGMGAAGTCTTTMGCAAGTCAGGGGCCACCTGTGGAMGCTCAGACACCTATTACCAGAGCCCCACAGGAGACAG | + | + | − | − | This study |
| NB-HH | 2 | ATGGCTGAGGACTGGCTGGACTGCCMGGCCCTGGGCCCTGGCTGGAAGMGCCGCGAAGTCTTTCGCAAGTCAGGGGCCACCTGTGGACGCTCAGACACCTATTACCAGAGCCCCACAGGAGACAG | + | + | − | − | This study |
| NB | 0 | ATGGCTGAGGACTGGCTGGACTGCCCGGCCCTGGGCCCTGGCTGGAAGCGCCGCGAAGTCTTTCGCAAGTCAGGGGCCACCTGTGGACGCTCAGACACCTATTACCAGAGCCCCACAGGAGACAG | − | − | − | − | This study |
| Me51 | 3 | GCCTTCAGMGCMGMGGATCCAGT | + | + | − | + | 20 |
| 51 | 0 | GCCTTCAGCGCCGCGGATCCAGT | − | − | − | − | 20 |
| MeSm | 3 | AGCAGCMGMGCCAAMGCTGGGAG | + | + | − | − | 37a |
| Sm | 0 | AGCAGCCGCGCCAACGCTGGGAG | − | − | − | − | 37a |
| MM2 | 1 | TCAGATTCGCGCMGGCTGCGATAAGCT | + | + | − | + | This study |
| MM1 | 0 | TCAGATTCGCGCCGGCTGCGATAAGCT | − | − | − | − | This study |
a
Sequence of one strand of double-stranded DNA probes used in gel shift assays. M, 5 methylcytosine. Methylated CpG dinucleotides are always methylated on both strands.
b
Binding of the protein to the DNA in band shift assays. Symbols: +, binding; −, no binding; (+), nonspecific binding. ND, not done.