Table 1.
Parameter | Aap-PGR | SasG-PGR | Aap-Arpts | SdrC-SD | SD-30mer |
---|---|---|---|---|---|
N | 135 | 69 | 189 | 62 | 30 |
f- | 0.15556 | 0.13043 | 0.22222 | 0.33871 | 0.50000 |
f+ | 0.1037 | 0.23188 | 0.06878 | 0.08065 | 0 |
FCR | 0.25926 | 0.36232 | 0.29101 | 0.41935 | 0.50000 |
NCPR | −0.05185 | 0.10145 | −0.15344 | −0.25806 | −0.50000 |
Kappa | 0.05825 | 0.09562 | 0.08655 | 0.30207 | 0.02324 |
SCD | 0.79 | 1.11 | 15.80 | 4.06 | 10.79 |
FPR | 0.28889 | 0.17391 | 0.09524 | 0.03226 | 0 |
Omega | 0.03234 | 0.07106 | 0.05146 | 0.00657 | 0.00096 |
Hydropathy | 3.09259 | 2.72899 | 3.08466 | 2.64839 | 2.35 |
Phase Plot Region | 2 | 3 | 2 | 3 | 4 |
The CIDER server [24] was used to calculate most parameters, including those required for the Das-Pappu Plot [4]; SCD was calculated as described [23].
N: Number of residues
f-: Fraction of negative residues
f+: Fraction of positive residues
FCR: Fraction of charged residues
NCPR: Net charge per residue
Kappa: κ is a charge patterning parameter [4]. Highly mixed charged sequences approach κ = 0, while highly segregated charged sequences approach κ = 1.
SCD: Sequence charge decoration [23]. Well-mixed charged sequences approach SCD = 0, whereas highly segregated charged sequences show large values of SCD.
FPR: Fraction of proline residues (not a parameter provided by CIDER, but included here for relevance)
Omega: Ω is a charge/proline patterning parameter [25]. This parameter is similar to κ, but also incorporates proline residues. If prolines and charged residues are well mixed along a sequence (with respect to other amino acids), there will be a low Ω value. If proline/charged residues are highly segregated, Ω will approach 1.
Hydropathy: Based on the Kyte-Doolittle scale [26], normalized from 0 (least hydrophobic) to 9 (most hydrophobic).
Phase Plot Region: Location on the Das-Pappu phase plot this sequence falls
Phase Plot Annotation:
1: Weak polyampholytes and polyelectrolytes (Globules & Tadpoles)
2: Boundary region (Janus sequences)
3: Strong polyampholytes
4: Strong negatively charged polyelectrolytes 5: Strong positively charged polyelectrolytes