Coding
"YCF"

Part:BBa_K1080010:Design

Designed by: Macquarie University   Group: iGEM13_Macquarie_Australia   (2013-09-22)

YCF54


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BamHI site found at 108
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI site found at 270


Design Notes

Incorporated sequence overlap for Gibson assembly and no GC rich region or restriction site in sequence.

Amino acid sequence

MAPAAASADK ATAAEYYALV CNAEWFFMDP QNESVAEQLR EKVRFFKEQN KERDFFIVPN
PKWLDAKFPE QAKQVKRPCV ALVSTDKMWI TFMKLRLDRV LKIDLKSMPA SEVLAAGEAL
PDFKPDGKWT APYARYTPGW WNVFLPNH </F>


References and documentation are available. Please note the modified algorithm for extinction coefficient.

Number of amino acids: 148

Molecular weight: 17073.7

Theoretical pI: 8.50

Amino acid composition: Ala (A) 20 13.5% Arg (R) 7 4.7% Asn (N) 6 4.1% Asp (D) 9 6.1% Cys (C) 2 1.4% Gln (Q) 5 3.4% Glu (E) 10 6.8% Gly (G) 3 2.0% His (H) 1 0.7% Ile (I) 3 2.0% Leu (L) 11 7.4% Lys (K) 14 9.5% Met (M) 5 3.4% Phe (F) 10 6.8% Pro (P) 12 8.1% Ser (S) 5 3.4% Thr (T) 5 3.4% Trp (W) 6 4.1% Tyr (Y) 4 2.7% Val (V) 10 6.8% Pyl (O) 0 0.0% Sec (U) 0 0.0% 

(B)   0	  0.0%
(Z)   0	  0.0%
(X)   0	  0.0%


Total number of negatively charged residues (Asp + Glu): 19 Total number of positively charged residues (Arg + Lys): 21

Atomic composition:

Carbon C 785 Hydrogen H 1190 Nitrogen N 202 Oxygen O 212 Sulfur S 7

Formula: C785H1190N202O212S7 Total number of atoms: 2396

Extinction coefficients:

Extinction coefficients are in units of M-1 cm-1, at 280 nm measured in water.

Ext. coefficient 39085 Abs 0.1% (=1 g/l) 2.289, assuming all pairs of Cys residues form cystines


Ext. coefficient 38960 Abs 0.1% (=1 g/l) 2.282, assuming all Cys residues are reduced

Estimated half-life:

The N-terminal of the sequence considered is M (Met).

The estimated half-life is: 

                            30 hours (mammalian reticulocytes, in vitro).
                           >20 hours (yeast, in vivo).
                           >10 hours (Escherichia coli, in vivo).


Instability index:

The instability index (II) is computed to be 35.64 This classifies the protein as stable.


Aliphatic index: 70.00

Grand average of hydropathicity (GRAVY): -0.385

Source

Chlamydomonas reinhardtii

===References===