CSM3/YMR048W Additional Physico-chemical Properties Help

Physico-chemical properties were determined using the ProtParam tool available through ExPASy to analyze the primary protein sequence for atomic composition, extinction coefficient, estimated half-life, instability index and aliphatic index. Transcript translation calculations were determined using CodonW.


A.A. Composition
Ala[A] 13 4.1%
Arg[R] 19 6.0%
Asn[N] 17 5.4%
Asp[D] 35 11.0%
Cys[C] 1 0.3%
Gln[Q] 14 4.4%
Glu[E] 27 8.5%
Gly[G] 19 6.0%
His[H] 7 2.2%
Ile[I] 11 3.5%
Leu[L] 31 9.8%
Lys[K] 22 6.9%
Met[M] 10 3.2%
Phe[F] 12 3.8%
Pro[P] 14 4.4%
Ser[S] 17 5.4%
Thr[T] 14 4.4%
Trp[W] 3 0.9%
Tyr[Y] 8 2.5%
Val[V] 23 7.3%
Total Length 317

Instability index
Instability index (II) 43.17
This classifies the protein as unstable

Atomic composition
Carbon 1588
Hydrogen 2498
Nitrogen 444
Oxygen 512
Sulfur 11
Total number of atoms 5053
Formula = C1588H2498N444O512S11

Estimated half-life
Escherichia coli (in vivo) >10 hours
mammalian reticulocytes (in vitro) 30 hours
yeast (in vivo) >20 hours

Extinction Coefficients at 280 nm
assuming ALL Cys residues appear as half cystines 28420 M-1 cm-1
assuming NO Cys residues appear as half cystines 28420 M-1 cm-1
assuming all Cys residues are reduced 28420 M-1 cm-1
assuming all pairs of Cys residues form cystines 28420 M-1 cm-1

Aliphatic index
Aliphatic index 76.81

Coding Region Translation Calculations
Codon Bias 0.029
Codon Adaptation Index 0.136
Frequency of Optimal Codons 0.421
Hydropathicity of Protein -0.768
Aromaticity Score 0.073