List of DNA sequences used in this study, Myb397–415-induced thermal stabilization (ΔT1/2) for G4 and duplex DNA structures measured by CD melting experiments, and equilibrium dissociation constants (Kd) for the binding of Myb397–415 to DNAs obtained by MST experiments
| DNA . | Sequence (5′ → 3′) . | Structure . | ΔT1/2(°C)a . | Kd(nM) . |
|---|---|---|---|---|
| c-KIT1 | AGGGAGGGCGCTGGGAGGAGGG | parallel G4 | 6.2 (±0.2) | 340 (±44) |
| c-KIT2 | CGGGCGGGCGCTAGGGAGGGT | parallel G4 | 11.2 (±0.2) | 130 (±15) |
| c-MYC | TGAGGGTGGGTAGGGTGGGTAA | parallel G4 | 5.0 (±0.2) | 430 (±100) |
| HER2 | GGAGAAGGAGGAGGTGGAGGAGGAGGG | parallel G4 | 7.0 (±0.2) | 130 (±20) |
| HT-FANA | TAGGGTTAGGGTTAGGGTTAGGGb | parallel G4 | 8.3 (±0.2) | 140 (±26) |
| HRAS1 | TCGGGTTGCGGGCGCAGGGCACGGGCG | antiparallel G4 | –2.0 (±0.2) | n.d.c |
| LWDLN1 | GGGTTTGGGTTTTGGGAGGG | antiparallel G4 | –4.0 (±0.2) | n.d.c |
| BCL-2 | GGGCGCGGGAGGAATTGGGCGGG | hybrid G4 | 8.0 (±0.2) | 280 (±42) |
| HT1 | TTGGGTTAGGGTTAGGGTTAGGGA | hybrid G4 | 1.6 (±0.2) | 900 (±140) |
| HT2 | TTAGGGTTAGGGTTAGGGTTAGGGTT | hybrid G4 | 2.7 (±0.2) | 1180 (±90) |
| VEGFR-17T | GGGTACCCGGGTGAGGTGCGGGGT | hybrid G4 | 0.2 (±0.2) | n.d.c |
| ds12 | CGCGAATTCGCG | duplex | 1.0 (±0.2) | n.d.c |
| DNA . | Sequence (5′ → 3′) . | Structure . | ΔT1/2(°C)a . | Kd(nM) . |
|---|---|---|---|---|
| c-KIT1 | AGGGAGGGCGCTGGGAGGAGGG | parallel G4 | 6.2 (±0.2) | 340 (±44) |
| c-KIT2 | CGGGCGGGCGCTAGGGAGGGT | parallel G4 | 11.2 (±0.2) | 130 (±15) |
| c-MYC | TGAGGGTGGGTAGGGTGGGTAA | parallel G4 | 5.0 (±0.2) | 430 (±100) |
| HER2 | GGAGAAGGAGGAGGTGGAGGAGGAGGG | parallel G4 | 7.0 (±0.2) | 130 (±20) |
| HT-FANA | TAGGGTTAGGGTTAGGGTTAGGGb | parallel G4 | 8.3 (±0.2) | 140 (±26) |
| HRAS1 | TCGGGTTGCGGGCGCAGGGCACGGGCG | antiparallel G4 | –2.0 (±0.2) | n.d.c |
| LWDLN1 | GGGTTTGGGTTTTGGGAGGG | antiparallel G4 | –4.0 (±0.2) | n.d.c |
| BCL-2 | GGGCGCGGGAGGAATTGGGCGGG | hybrid G4 | 8.0 (±0.2) | 280 (±42) |
| HT1 | TTGGGTTAGGGTTAGGGTTAGGGA | hybrid G4 | 1.6 (±0.2) | 900 (±140) |
| HT2 | TTAGGGTTAGGGTTAGGGTTAGGGTT | hybrid G4 | 2.7 (±0.2) | 1180 (±90) |
| VEGFR-17T | GGGTACCCGGGTGAGGTGCGGGGT | hybrid G4 | 0.2 (±0.2) | n.d.c |
| ds12 | CGCGAATTCGCG | duplex | 1.0 (±0.2) | n.d.c |
aΔT1/2 represents the difference in melting temperature [ΔT1/2= T1/2 (DNA + peptide) – T1/2 (DNA)]. The T1/2 values of DNA alone are: c-KIT1 = 53.8 (±0.1)°C, c-KIT2 = 59.5 (±0.1)°C, c-MYC= 68.2 (±0.1)°C, HER2 = 62.4 (±0.1)°C, HT-FANA = 62.9 (±0.1)°C, HRAS1 = 52.3 (±0.1)°C, LWDLN1 = 49.6 (±0.1)°C, BCL-2 = 60.7 (±0.1)°C, HT1 = 56.9 (±0.1)°C, HT2 = 42.7 (±0.1)°C, VEGFR-17T = 53.7 (±0.1)°C, ds12 = 62.7 (±0.1)°C. bBold G denotes 2′-fluoroarabino-guanosine (2′-F-ANA-guanosine). cn.d. = not determined due to undetectable binding.
List of DNA sequences used in this study, Myb397–415-induced thermal stabilization (ΔT1/2) for G4 and duplex DNA structures measured by CD melting experiments, and equilibrium dissociation constants (Kd) for the binding of Myb397–415 to DNAs obtained by MST experiments
| DNA . | Sequence (5′ → 3′) . | Structure . | ΔT1/2(°C)a . | Kd(nM) . |
|---|---|---|---|---|
| c-KIT1 | AGGGAGGGCGCTGGGAGGAGGG | parallel G4 | 6.2 (±0.2) | 340 (±44) |
| c-KIT2 | CGGGCGGGCGCTAGGGAGGGT | parallel G4 | 11.2 (±0.2) | 130 (±15) |
| c-MYC | TGAGGGTGGGTAGGGTGGGTAA | parallel G4 | 5.0 (±0.2) | 430 (±100) |
| HER2 | GGAGAAGGAGGAGGTGGAGGAGGAGGG | parallel G4 | 7.0 (±0.2) | 130 (±20) |
| HT-FANA | TAGGGTTAGGGTTAGGGTTAGGGb | parallel G4 | 8.3 (±0.2) | 140 (±26) |
| HRAS1 | TCGGGTTGCGGGCGCAGGGCACGGGCG | antiparallel G4 | –2.0 (±0.2) | n.d.c |
| LWDLN1 | GGGTTTGGGTTTTGGGAGGG | antiparallel G4 | –4.0 (±0.2) | n.d.c |
| BCL-2 | GGGCGCGGGAGGAATTGGGCGGG | hybrid G4 | 8.0 (±0.2) | 280 (±42) |
| HT1 | TTGGGTTAGGGTTAGGGTTAGGGA | hybrid G4 | 1.6 (±0.2) | 900 (±140) |
| HT2 | TTAGGGTTAGGGTTAGGGTTAGGGTT | hybrid G4 | 2.7 (±0.2) | 1180 (±90) |
| VEGFR-17T | GGGTACCCGGGTGAGGTGCGGGGT | hybrid G4 | 0.2 (±0.2) | n.d.c |
| ds12 | CGCGAATTCGCG | duplex | 1.0 (±0.2) | n.d.c |
| DNA . | Sequence (5′ → 3′) . | Structure . | ΔT1/2(°C)a . | Kd(nM) . |
|---|---|---|---|---|
| c-KIT1 | AGGGAGGGCGCTGGGAGGAGGG | parallel G4 | 6.2 (±0.2) | 340 (±44) |
| c-KIT2 | CGGGCGGGCGCTAGGGAGGGT | parallel G4 | 11.2 (±0.2) | 130 (±15) |
| c-MYC | TGAGGGTGGGTAGGGTGGGTAA | parallel G4 | 5.0 (±0.2) | 430 (±100) |
| HER2 | GGAGAAGGAGGAGGTGGAGGAGGAGGG | parallel G4 | 7.0 (±0.2) | 130 (±20) |
| HT-FANA | TAGGGTTAGGGTTAGGGTTAGGGb | parallel G4 | 8.3 (±0.2) | 140 (±26) |
| HRAS1 | TCGGGTTGCGGGCGCAGGGCACGGGCG | antiparallel G4 | –2.0 (±0.2) | n.d.c |
| LWDLN1 | GGGTTTGGGTTTTGGGAGGG | antiparallel G4 | –4.0 (±0.2) | n.d.c |
| BCL-2 | GGGCGCGGGAGGAATTGGGCGGG | hybrid G4 | 8.0 (±0.2) | 280 (±42) |
| HT1 | TTGGGTTAGGGTTAGGGTTAGGGA | hybrid G4 | 1.6 (±0.2) | 900 (±140) |
| HT2 | TTAGGGTTAGGGTTAGGGTTAGGGTT | hybrid G4 | 2.7 (±0.2) | 1180 (±90) |
| VEGFR-17T | GGGTACCCGGGTGAGGTGCGGGGT | hybrid G4 | 0.2 (±0.2) | n.d.c |
| ds12 | CGCGAATTCGCG | duplex | 1.0 (±0.2) | n.d.c |
aΔT1/2 represents the difference in melting temperature [ΔT1/2= T1/2 (DNA + peptide) – T1/2 (DNA)]. The T1/2 values of DNA alone are: c-KIT1 = 53.8 (±0.1)°C, c-KIT2 = 59.5 (±0.1)°C, c-MYC= 68.2 (±0.1)°C, HER2 = 62.4 (±0.1)°C, HT-FANA = 62.9 (±0.1)°C, HRAS1 = 52.3 (±0.1)°C, LWDLN1 = 49.6 (±0.1)°C, BCL-2 = 60.7 (±0.1)°C, HT1 = 56.9 (±0.1)°C, HT2 = 42.7 (±0.1)°C, VEGFR-17T = 53.7 (±0.1)°C, ds12 = 62.7 (±0.1)°C. bBold G denotes 2′-fluoroarabino-guanosine (2′-F-ANA-guanosine). cn.d. = not determined due to undetectable binding.
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