NPL4/YBR170C 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] 25 4.3%
Arg[R] 22 3.8%
Asn[N] 30 5.2%
Asp[D] 34 5.9%
Cys[C] 10 1.7%
Gln[Q] 27 4.7%
Glu[E] 47 8.1%
Gly[G] 39 6.7%
His[H] 18 3.1%
Ile[I] 36 6.2%
Leu[L] 48 8.3%
Lys[K] 40 6.9%
Met[M] 16 2.8%
Phe[F] 25 4.3%
Pro[P] 24 4.1%
Ser[S] 52 9.0%
Thr[T] 25 4.3%
Trp[W] 7 1.2%
Tyr[Y] 22 3.8%
Val[V] 33 5.7%
Total Length 580

Instability index
Instability index (II) 35.87
This classifies the protein as stable

Atomic composition
Carbon 2914
Hydrogen 4520
Nitrogen 786
Oxygen 899
Sulfur 26
Total number of atoms 9145
Formula = C2914H4520N786O899S26

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 71905 M-1 cm-1
assuming NO Cys residues appear as half cystines 71280 M-1 cm-1
assuming all Cys residues are reduced 71280 M-1 cm-1
assuming all pairs of Cys residues form cystines 71905 M-1 cm-1

Aliphatic index
Aliphatic index 77.29

Coding Region Translation Calculations
Codon Bias 0.041
Codon Adaptation Index 0.129
Frequency of Optimal Codons 0.438
Hydropathicity of Protein -0.500
Aromaticity Score 0.093