SAM1/YLR180W 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] 37 9.7%
Arg[R] 15 3.9%
Asn[N] 5 1.3%
Asp[D] 34 8.9%
Cys[C] 5 1.3%
Gln[Q] 16 4.2%
Glu[E] 23 6.0%
Gly[G] 32 8.4%
His[H] 8 2.1%
Ile[I] 28 7.3%
Leu[L] 27 7.1%
Lys[K] 27 7.1%
Met[M] 7 1.8%
Phe[F] 12 3.1%
Pro[P] 16 4.2%
Ser[S] 21 5.5%
Thr[T] 25 6.5%
Trp[W] 4 1.0%
Tyr[Y] 14 3.7%
Val[V] 26 6.8%
Total Length 382

Instability index
Instability index (II) 33.84
This classifies the protein as stable

Atomic composition
Carbon 1857
Hydrogen 2925
Nitrogen 495
Oxygen 578
Sulfur 12
Total number of atoms 5867
Formula = C1857H2925N495O578S12

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 43110 M-1 cm-1
assuming NO Cys residues appear as half cystines 42860 M-1 cm-1
assuming all Cys residues are reduced 42860 M-1 cm-1
assuming all pairs of Cys residues form cystines 43110 M-1 cm-1

Aliphatic index
Aliphatic index 85.58

Coding Region Translation Calculations
Codon Bias 0.590
Codon Adaptation Index 0.494
Frequency of Optimal Codons 0.757
Hydropathicity of Protein -0.267
Aromaticity Score 0.079