← All factors / TF RECORD
PUT3
YKL015W
Transcriptional activator of proline utilization genes, constitutively binds PUT1 and PUT2 promoter sequences and undergoes a conformational change to form the active state; has a Zn(2)-Cys(6) binuclear cluster domain
01 / RECOMMENDED MATRIX
Best-performing DNA-binding model.
Fisher’s P-value2.94e-15
Information content12.4
Max PWM score16.81
Recommended cutoff12.39
View and copy the recommended matrices ↘
Position frequency matrix (PFM)
A | 0.045 0.168 0.021 0.178 0.446 0.513 0.105 0.060 0.026 0.403 0.387 0.179 0.077 0.046 0.035 0.080 C | 0.781 0.068 0.086 0.201 0.163 0.179 0.335 0.892 0.649 0.369 0.337 0.299 0.498 0.658 0.869 0.086 G | 0.109 0.649 0.859 0.367 0.162 0.168 0.461 0.018 0.278 0.077 0.066 0.126 0.235 0.183 0.038 0.749 T | 0.065 0.115 0.034 0.255 0.228 0.140 0.099 0.030 0.047 0.152 0.210 0.396 0.191 0.113 0.058 0.086
Position count matrix (PCM)
A | 4 16 2 17 44 51 10 6 2 40 38 17 7 4 3 8 C | 78 6 8 20 16 17 33 89 64 36 33 29 49 65 86 8 G | 10 64 85 36 16 16 46 1 27 7 6 12 23 18 3 74 T | 6 11 3 25 22 14 9 3 4 15 21 39 19 11 5 8
Position weight matrix (PWM)
A | -1.96 -0.64 -2.72 -0.59 0.33 0.47 -1.11 -1.67 -2.51 0.23 0.19 -0.58 -1.42 -1.94 -2.21 -1.39 C | 1.47 -0.97 -0.74 0.11 -0.10 -0.01 0.62 1.60 1.28 0.72 0.63 0.51 1.02 1.30 1.57 -0.74 G | -0.50 1.28 1.56 0.71 -0.11 -0.07 0.94 -2.30 0.43 -0.85 -1.00 -0.36 0.27 0.02 -1.56 1.43 T | -1.59 -1.02 -2.24 -0.23 -0.34 -0.83 -1.17 -2.37 -1.92 -0.74 -0.42 0.21 -0.52 -1.04 -1.71 -1.31
02 / COMPARATIVE BENCHMARKS
Alternative candidate matrices 9
Historical matrix candidates from the original ScerTF database. Expand a source to inspect its original logo, scores, and matrix values.
PUT3Badis et. al.P = 0.2237View matrix ↘
Fisher’s P-value0.2237
Information content11.72
Max PWM score9.73
Recommended cutoff5.35
Position frequency matrix (PFM)
A | 0.09 0.02 0.01 0.01 0.01 0.01 C | 0.73 0.90 0.97 0.01 0.01 0.01 G | 0.09 0.02 0.01 0.97 0.97 0.97 T | 0.09 0.06 0.01 0.01 0.01 0.01
Position count matrix (PCM)
A | 9 2 1 1 1 1 C | 73 90 97 1 1 1 G | 9 2 1 97 97 97 T | 9 6 1 1 1 1
Position weight matrix (PWM)
A | -1.27 -2.77 -3.47 -3.47 -3.47 -3.47 C | 1.40 1.61 1.68 -2.89 -2.89 -2.89 G | -0.69 -2.20 -2.89 1.68 1.68 1.68 T | -1.27 -1.67 -3.47 -3.47 -3.47 -3.47
PUT3_AFoat et. al.P = 0.04009View matrix ↘
Fisher’s P-value0.04009
Information content20.3
Max PWM score22.41
Recommended cutoff11.7
Position frequency matrix (PFM)
A | 0.04 0.35 0.97 0.01 0.01 0.47 0.34 0.16 0.10 0.10 0.03 0.02 0.27 0.61 0.02 0.51 0.01 0.02 0.93 0.18 0.11 0.56 C | 0.12 0.60 0.01 0.01 0.51 0.32 0.61 0.54 0.21 0.25 0.48 0.91 0.48 0.05 0.35 0.02 0.01 0.96 0.05 0.46 0.08 0.02 G | 0.09 0.01 0.01 0.97 0.01 0.20 0.02 0.29 0.66 0.11 0.04 0.04 0.03 0.01 0.28 0.31 0.01 0.01 0.01 0.28 0.49 0.01 T | 0.76 0.04 0.01 0.01 0.48 0.01 0.03 0.02 0.03 0.55 0.45 0.03 0.23 0.33 0.35 0.16 0.97 0.01 0.01 0.09 0.32 0.42
Position count matrix (PCM)
A | 4 35 97 1 1 47 34 16 10 10 3 2 27 61 2 51 1 2 93 18 11 56 C | 12 60 1 1 51 32 61 54 21 25 48 91 48 5 35 2 1 96 5 46 8 2 G | 9 1 1 97 1 20 2 28 66 11 4 4 3 1 28 31 1 1 1 28 49 1 T | 76 4 1 1 48 1 3 2 3 55 45 3 23 33 35 16 97 1 1 9 32 42
Position weight matrix (PWM)
A | -2.08 0.09 1.11 -3.47 -3.47 0.38 0.06 -0.69 -1.16 -1.16 -2.37 -2.77 -0.17 0.65 -2.77 0.47 -3.47 -2.77 1.07 -0.58 -1.07 0.56 C | -0.41 1.20 -2.89 -2.89 1.04 0.58 1.22 1.10 0.15 0.33 0.98 1.62 0.98 -1.28 0.66 -2.20 -2.89 1.67 -1.28 0.94 -0.81 -2.20 G | -0.69 -2.89 -2.89 1.68 -2.89 0.11 -2.20 0.48 1.30 -0.49 -1.50 -1.50 -1.79 -2.89 0.44 0.54 -2.89 -2.89 -2.89 0.44 1.00 -2.89 T | 0.86 -2.08 -3.47 -3.47 0.41 -3.47 -2.37 -2.77 -2.37 0.54 0.34 -2.37 -0.33 0.03 0.09 -0.69 1.11 -3.47 -3.47 -1.27 0.00 0.27
PUT3_BFoat et. al.P = 0.02273View matrix ↘
Fisher’s P-value0.02273
Information content19.83
Max PWM score23.01
Recommended cutoff11.67
Position frequency matrix (PFM)
A | 0.24 0.51 0.53 0.15 0.05 0.01 0.04 0.28 0.27 0.11 0.01 0.01 0.17 0.69 0.04 0.25 0.01 0.01 0.07 0.16 C | 0.64 0.03 0.08 0.74 0.01 0.01 0.47 0.04 0.27 0.56 0.56 0.82 0.29 0.10 0.03 0.68 0.92 0.87 0.01 0.09 G | 0.11 0.24 0.27 0.10 0.85 0.94 0.36 0.51 0.21 0.29 0.33 0.10 0.51 0.09 0.40 0.01 0.01 0.01 0.91 0.60 T | 0.01 0.23 0.12 0.01 0.09 0.04 0.13 0.18 0.26 0.03 0.11 0.07 0.03 0.12 0.53 0.07 0.06 0.11 0.01 0.15
Position count matrix (PCM)
A | 24 51 53 15 5 1 4 28 27 11 1 1 17 69 4 25 1 1 7 16 C | 64 3 8 74 1 1 47 4 27 56 56 82 28 10 3 68 92 87 1 9 G | 11 24 27 10 85 94 36 51 21 28 33 10 51 9 40 1 1 1 91 60 T | 1 23 12 1 9 4 13 18 26 3 11 7 3 12 53 7 6 11 1 15
Position weight matrix (PWM)
A | -0.29 0.47 0.50 -0.76 -1.86 -3.47 -2.08 -0.13 -0.17 -1.07 -3.47 -3.47 -0.63 0.77 -2.08 -0.25 -3.47 -3.47 -1.52 -0.69 C | 1.27 -1.79 -0.81 1.41 -2.89 -2.89 0.96 -1.50 0.41 1.13 1.13 1.52 0.48 -0.59 -1.79 1.33 1.63 1.58 -2.89 -0.69 G | -0.49 0.29 0.41 -0.59 1.55 1.65 0.69 1.04 0.15 0.48 0.61 -0.59 1.04 -0.69 0.80 -2.89 -2.89 -2.89 1.62 1.20 T | -3.47 -0.33 -0.98 -3.47 -1.27 -2.08 -0.90 -0.58 -0.21 -2.37 -1.07 -1.52 -2.37 -0.98 0.50 -1.52 -1.67 -1.07 -3.47 -0.76
PUT3_CFoat et. al.P = 0.3275View matrix ↘
Fisher’s P-value0.3275
Information content7.397
Max PWM score8.93
Recommended cutoff5.02
Position frequency matrix (PFM)
A | 0.21 0.29 0.67 0.73 0.46 0.65 0.74 0.36 0.97 0.13 0.57 0.44 C | 0.01 0.01 0.01 0.24 0.01 0.01 0.01 0.01 0.01 0.11 0.01 0.01 G | 0.52 0.01 0.01 0.01 0.20 0.01 0.05 0.01 0.01 0.11 0.16 0.01 T | 0.26 0.70 0.32 0.03 0.33 0.34 0.21 0.63 0.01 0.65 0.27 0.55
Position count matrix (PCM)
A | 21 28 67 73 46 65 74 36 97 13 56 44 C | 1 1 1 24 1 1 1 1 1 11 1 1 G | 52 1 1 1 20 1 5 1 1 11 16 1 T | 26 70 32 3 33 34 21 63 1 65 27 55
Position weight matrix (PWM)
A | -0.42 -0.10 0.74 0.82 0.36 0.71 0.84 0.12 1.11 -0.90 0.58 0.32 C | -2.89 -2.89 -2.89 0.29 -2.89 -2.89 -2.89 -2.89 -2.89 -0.49 -2.89 -2.89 G | 1.06 -2.89 -2.89 -2.89 0.11 -2.89 -1.28 -2.89 -2.89 -0.49 -0.12 -2.89 T | -0.21 0.78 0.00 -2.37 0.03 0.06 -0.42 0.68 -3.47 0.71 -0.17 0.54
PUT3Harbison et. al.P = 6.52e-08View matrix ↘
Fisher’s P-value6.52e-08
Information content13.75
Max PWM score14.04
Recommended cutoff10.56
Position frequency matrix (PFM)
A | 0.250 0.250 0.012 0.012 0.012 0.250 0.250 0.250 0.250 0.250 0.250 0.250 0.250 0.250 0.250 0.012 0.012 0.012 C | 0.250 0.250 0.964 0.012 0.012 0.250 0.250 0.250 0.250 0.250 0.250 0.250 0.250 0.250 0.250 0.964 0.964 0.012 G | 0.250 0.250 0.012 0.964 0.964 0.250 0.250 0.250 0.250 0.250 0.250 0.250 0.250 0.250 0.250 0.012 0.012 0.964 T | 0.250 0.250 0.012 0.012 0.012 0.250 0.250 0.250 0.250 0.250 0.250 0.250 0.250 0.250 0.250 0.012 0.012 0.012
Position count matrix (PCM)
A | 25 25 1 1 1 25 25 25 25 25 25 25 25 25 25 1 1 1 C | 25 25 96 1 1 25 25 25 25 25 25 25 25 25 25 96 96 1 G | 25 25 1 96 96 25 25 25 25 25 25 25 25 25 25 1 1 96 T | 25 25 1 1 1 25 25 25 25 25 25 25 25 25 25 1 1 1
Position weight matrix (PWM)
A | -0.25 -0.25 -3.28 -3.28 -3.28 -0.25 -0.25 -0.25 -0.25 -0.25 -0.25 -0.25 -0.25 -0.25 -0.25 -3.28 -3.28 -3.28 C | 0.33 0.33 1.68 -2.71 -2.71 0.33 0.33 0.33 0.33 0.33 0.33 0.33 0.33 0.33 0.33 1.68 1.68 -2.71 G | 0.33 0.33 -2.71 1.68 1.68 0.33 0.33 0.33 0.33 0.33 0.33 0.33 0.33 0.33 0.33 -2.71 -2.71 1.68 T | -0.25 -0.25 -3.28 -3.28 -3.28 -0.25 -0.25 -0.25 -0.25 -0.25 -0.25 -0.25 -0.25 -0.25 -0.25 -3.28 -3.28 -3.28
PUT3Macisaac et. alP = 3.16e-11View matrix ↘
Fisher’s P-value3.16e-11
Information content20.73
Max PWM score20.05
Recommended cutoff13.84
Position frequency matrix (PFM)
A | 0.001 0.001 0.092 0.102 0.956 0.997 0.167 0.001 0.001 0.733 0.454 0.162 0.162 0.162 0.162 0.162 C | 0.997 0.001 0.001 0.092 0.001 0.001 0.001 0.997 0.898 0.265 0.296 0.421 0.421 0.588 0.547 0.129 G | 0.001 0.997 0.906 0.805 0.042 0.001 0.831 0.001 0.100 0.001 0.088 0.088 0.088 0.088 0.129 0.547 T | 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.162 0.329 0.329 0.162 0.162 0.162
Position count matrix (PCM)
A | 0 0 9 10 95 99 16 0 0 73 45 16 16 16 16 16 C | 99 0 0 9 0 0 0 99 89 26 29 42 42 58 54 12 G | 0 99 90 80 4 0 83 0 10 0 8 8 8 8 12 54 T | 0 0 0 0 0 0 0 0 0 0 16 32 32 16 16 16
Position weight matrix (PWM)
A | -5.77 -5.77 -1.25 -1.14 1.09 1.14 -0.65 -5.77 -5.77 0.83 0.35 -0.68 -0.68 -0.68 -0.68 -0.68 C | 1.71 -5.19 -5.19 -0.67 -5.19 -5.19 -5.19 1.71 1.61 0.39 0.50 0.85 0.85 1.18 1.11 -0.33 G | -5.19 1.71 1.62 1.50 -1.46 -5.19 1.53 -5.19 -0.59 -5.19 -0.72 -0.72 -0.72 -0.72 -0.33 1.11 T | -5.77 -5.77 -5.77 -5.77 -5.77 -5.77 -5.77 -5.77 -5.77 -5.77 -0.68 0.03 0.03 -0.68 -0.68 -0.68
PUT3Pachkov et alP = 2.94e-07View matrix ↘
Fisher’s P-value2.94e-07
Information content29.5
Max PWM score23.89
Recommended cutoff20.49
Position frequency matrix (PFM)
A | 0.001 0.147 0.001 0.163 0.471 0.446 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.554 C | 0.259 0.706 0.158 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.554 0.001 0.158 1.000 1.000 1.000 0.001 0.001 G | 0.001 0.147 0.842 0.837 0.529 0.554 0.536 0.446 1.000 1.000 0.001 0.001 0.001 0.001 0.001 0.001 1.000 0.446 T | 0.741 0.001 0.001 0.001 0.001 0.001 0.464 0.554 0.001 0.001 0.446 1.000 0.842 0.001 0.001 0.001 0.001 0.001
Position count matrix (PCM)
A | 0 14 0 16 47 44 0 0 0 0 0 0 0 0 0 0 0 55 C | 25 70 15 0 0 0 0 0 0 0 55 0 15 100 100 100 0 0 G | 0 14 84 83 52 55 53 44 100 100 0 0 0 0 0 0 100 44 T | 74 0 0 0 0 0 46 55 0 0 44 100 84 0 0 0 0 0
Position weight matrix (PWM)
A | -5.77 -0.78 -5.77 -0.67 0.39 0.33 -5.77 -5.77 -5.77 -5.77 -5.77 -5.77 -5.77 -5.77 -5.77 -5.77 -5.77 0.55 C | 0.36 1.37 -0.13 -5.19 -5.19 -5.19 -5.19 -5.19 -5.19 -5.19 1.12 -5.19 -0.13 1.71 1.71 1.71 -5.19 -5.19 G | -5.19 -0.20 1.54 1.54 1.08 1.12 1.09 0.91 1.71 1.71 -5.19 -5.19 -5.19 -5.19 -5.19 -5.19 1.71 0.91 T | 0.84 -5.77 -5.77 -5.77 -5.77 -5.77 0.37 0.55 -5.77 -5.77 0.33 1.14 0.97 -5.77 -5.77 -5.77 -5.77 -5.77
PUT3Zhu et. al.P = 0.009692View matrix ↘
Fisher’s P-value0.009692
Information content9.629
Max PWM score10.86
Recommended cutoff6.57
Position frequency matrix (PFM)
A | 0.59 0.06 0.03 0.01 0.01 0.01 0.22 0.20 0.58 C | 0.12 0.12 0.80 0.91 0.85 0.16 0.05 0.07 0.10 G | 0.14 0.08 0.01 0.01 0.13 0.82 0.70 0.64 0.14 T | 0.15 0.75 0.16 0.06 0.01 0.01 0.02 0.09 0.17
Position count matrix (PCM)
A | 59 6 3 1 1 1 22 20 57 C | 12 12 80 91 85 16 5 7 10 G | 14 8 1 1 13 82 70 64 14 T | 15 75 16 6 1 1 2 9 17
Position weight matrix (PWM)
A | 0.61 -1.67 -2.37 -3.47 -3.47 -3.47 -0.37 -0.47 0.59 C | -0.41 -0.41 1.49 1.62 1.55 -0.12 -1.28 -0.94 -0.59 G | -0.25 -0.81 -2.89 -2.89 -0.33 1.52 1.36 1.27 -0.25 T | -0.76 0.85 -0.69 -1.67 -3.47 -3.47 -2.77 -1.27 -0.63
PUT3Zhao and StormoP = 0.01608View matrix ↘
Fisher’s P-value0.01608
Information content7.115
Max PWM score7.08
Recommended cutoff4.71
Position frequency matrix (PFM)
A | 0.279 0.232 0.086 0.001 0.001 0.001 0.352 0.280 C | 0.201 0.204 0.473 0.981 0.972 0.038 0.216 0.201 G | 0.193 0.145 0.084 0.005 0.026 0.911 0.243 0.274 T | 0.328 0.419 0.358 0.014 0.001 0.050 0.189 0.245
Position count matrix (PCM)
A | 27 23 8 0 0 0 35 28 C | 20 20 47 98 97 3 21 20 G | 19 14 8 0 2 91 24 27 T | 32 41 35 1 0 5 18 24
Position weight matrix (PWM)
A | -0.14 -0.32 -1.31 -5.77 -5.77 -5.77 0.10 -0.13 C | 0.11 0.13 0.97 1.70 1.69 -1.56 0.18 0.11 G | 0.07 -0.22 -0.76 -3.58 -1.93 1.62 0.30 0.42 T | 0.02 0.27 0.11 -3.13 -5.77 -1.86 -0.53 -0.27
03 / EXPERIMENTAL CONTEXT
Gene-level annotations and interactions.
Genes bound in ChIP-chip experiments 63 genes
YAL004W, YAR068W, YBL032W, YBL033C, YBL063W, YBL064C, YBR035C, YBR161W, YBR230C, YDL014W, YDL015C, YDL020C, YDL024C, YDL045W-A, YDL129W, YDL191W, YDL215C, YDR226W, YDR306C, YEL055C, YER060W, YER093C-A, YER137C, YER159C, YFR032C, YFR035C, YGL103W, YGL104C, YGL123W, YGL124C, YGR123C, YGR124W, YGR125W, YGR239C, YGR256W, YHL034C, YHR033W, YHR037W, YIL133C, YJL045W, YKL123W, YKL124W, YKR073C, YLL027W, YLR055C, YLR056W, YLR139C, YLR142W, YLR152C, YML102W, YML103C, YML124C, YNL016W, YNL017C, YOL026C, YOL155C, YOR236W, YOR272W, YOR302W, YOR303W, YOR306C, YPL130W, YPR149W
Genes affected by TF deletion 177 genes
YCR010C, YCR040W, YGR280C, YGR282C, YJR020W, YKR012C, YOR225W, YFR032C-A, YGL009C, YLR025W, YMR194W, YBR031W, YCR013C, YGR279C, YIL082W, YKR042W, YKR013W, YMR044W, YOR194C, YOR226C, YCR097W-A, YGR096W, YHR142W, YHR143W-A, YJL118W, YLR089C, YOR066W, YPL048W, YCR073W-A, YFL012W, YFR005C, YHR025W, YIR034C, YLR340W, YLR372W, YLR374C, YNL149C, YOR347C, YOR351C, YPL187W, YBR283C, YER026C, YHR208W, YML085C, YBR067C, YDR461W, YKL015W, YLR339C, YNL110C, YNL146W, YCL018W, YDL191W, YER083C, YIL015W, YIL019W, YKL136W, YLR185W, YML055W, YNL300W, YLR287C-A, YNL058C, YNL030W, YOR229W, YDL133C-A, YDL136W, YFR044C, YHR123W, YLR439W, YMR230W, YNL279W, YDR077W, YER154W, YGL237C, YIL153W, YNL057W, YJR148W, YAL012W, YAL014C, YBR168W, YER001W, YER003C, YLR101C, YMR169C, YDR502C, YFL018C, YOL144W, YOL086C, YPL195W, YKL209C, YKL178C, YMR260C, YPL092W, YHR199C, YLR343W, YLR349W, YOL143C, YNL041C, YNR043W, YAR075W, YBL032W, YHR216W, YJL158C, YKL146W, YKL177W, YML090W, YCR059C, YER131W, YHR010W, YIL100W, YKR093W, YOR239W, YHR190W, YLR040C, YLR420W, YDL058W, YCL066W, YHR005C-A, YKR086W, YML126C, YOR210W, YAL018C, YAL022C, YDL113C, YER008C, YGR109W-A, YKL120W, YLR041W, YOR084W, YCR097W, YFL026W, YHR037W, YHR072W-A, YOL126C, YOR383C, YGL089C, YMR304C-A, YFL023W, YNL162W, YGR233C, YJR004C, YKL216W, YNR042W, YNR044W, YNL322C, YDR056C, YGL256W, YLR303W, YOR247W, YER019C-A, YEL038W, YGR172C, YGR148C, YHR141C, YJL079C, YML019W, YNL263C, YOR063W, YLR302C, YNL045W, YOR248W, YGL032C, YLR051C, YBR118W, YFL037W, YOR307C, YPR012W, YOR034C, YCL009C, YDL184C, YGR274C, YJR009C, YKL164C, YMR276W, YMR305C, YOR306C, YER073W, YOR182C
Genes supported by both experiments 4 genes
YBL032W, YDL191W, YHR037W, YOR306C