VPS65/YLR322W 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] 1 1.0%
Arg[R] 6 5.8%
Asn[N] 3 2.9%
Asp[D] 3 2.9%
Cys[C] 8 7.7%
Gln[Q] 1 1.0%
Glu[E] 3 2.9%
Gly[G] 1 1.0%
His[H] 6 5.8%
Ile[I] 18 17.3%
Leu[L] 11 10.6%
Lys[K] 4 3.8%
Met[M] 3 2.9%
Phe[F] 10 9.6%
Pro[P] 2 1.9%
Ser[S] 8 7.7%
Thr[T] 2 1.9%
Trp[W] 1 1.0%
Tyr[Y] 0 0.0%
Val[V] 13 12.5%
Total Length 104

Instability index
Instability index (II) 38.42
This classifies the protein as stable

Atomic composition
Carbon 566
Hydrogen 905
Nitrogen 143
Oxygen 131
Sulfur 11
Total number of atoms 1756
Formula = C566H905N143O131S11

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 6000 M-1 cm-1
assuming NO Cys residues appear as half cystines 5500 M-1 cm-1
assuming all Cys residues are reduced 5500 M-1 cm-1
assuming all pairs of Cys residues form cystines 6000 M-1 cm-1

Aliphatic index
Aliphatic index 145.96

Coding Region Translation Calculations
Codon Bias 0.145
Codon Adaptation Index 0.186
Frequency of Optimal Codons 0.530
Hydropathicity of Protein 1.190
Aromaticity Score 0.106