VHR2/YER064C 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] 27 5.3%
Arg[R] 26 5.1%
Asn[N] 26 5.1%
Asp[D] 25 5.0%
Cys[C] 4 0.8%
Gln[Q] 22 4.4%
Glu[E] 34 6.7%
Gly[G] 15 3.0%
His[H] 12 2.4%
Ile[I] 35 6.9%
Leu[L] 52 10.3%
Lys[K] 44 8.7%
Met[M] 8 1.6%
Phe[F] 17 3.4%
Pro[P] 28 5.5%
Ser[S] 68 13.5%
Thr[T] 30 5.9%
Trp[W] 1 0.2%
Tyr[Y] 11 2.2%
Val[V] 20 4.0%
Total Length 505

Instability index
Instability index (II) 55.61
This classifies the protein as unstable

Atomic composition
Carbon 2488
Hydrogen 4038
Nitrogen 700
Oxygen 781
Sulfur 12
Total number of atoms 8019
Formula = C2488H4038N700O781S12

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 22140 M-1 cm-1
assuming NO Cys residues appear as half cystines 21890 M-1 cm-1
assuming all Cys residues are reduced 21890 M-1 cm-1
assuming all pairs of Cys residues form cystines 22140 M-1 cm-1

Aliphatic index
Aliphatic index 84.02

Coding Region Translation Calculations
Codon Bias 0.054
Codon Adaptation Index 0.133
Frequency of Optimal Codons 0.433
Hydropathicity of Protein -0.559
Aromaticity Score 0.057