PGM2/YMR105C 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] 39 6.9%
Arg[R] 17 3.0%
Asn[N] 28 4.9%
Asp[D] 36 6.3%
Cys[C] 6 1.1%
Gln[Q] 13 2.3%
Glu[E] 35 6.2%
Gly[G] 52 9.1%
His[H] 11 1.9%
Ile[I] 44 7.7%
Leu[L] 38 6.7%
Lys[K] 49 8.6%
Met[M] 8 1.4%
Phe[F] 29 5.1%
Pro[P] 27 4.7%
Ser[S] 38 6.7%
Thr[T] 33 5.8%
Trp[W] 7 1.2%
Tyr[Y] 27 4.7%
Val[V] 32 5.6%
Total Length 569

Instability index
Instability index (II) 27.52
This classifies the protein as stable

Atomic composition
Carbon 2851
Hydrogen 4395
Nitrogen 739
Oxygen 851
Sulfur 14
Total number of atoms 8850
Formula = C2851H4395N739O851S14

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 79105 M-1 cm-1
assuming NO Cys residues appear as half cystines 78730 M-1 cm-1
assuming all Cys residues are reduced 78730 M-1 cm-1
assuming all pairs of Cys residues form cystines 79105 M-1 cm-1

Aliphatic index
Aliphatic index 79.37

Coding Region Translation Calculations
Codon Bias 0.336
Codon Adaptation Index 0.308
Frequency of Optimal Codons 0.612
Hydropathicity of Protein -0.343
Aromaticity Score 0.111