Coding
DVR1

Part:BBa_K1080012:Design

Designed by: Macquarie University   Group: iGEM13_Macquarie_Australia   (2013-09-22)
Revision as of 02:08, 26 September 2013 by DMC (Talk | contribs) (→‎Design Notes)

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DVR1


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BamHI site found at 288
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]


Design Notes

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

Amino acid sequence

MAMAASRQAV RVAAAVDADY RKREPKDVRV LVVGPTGYIG KFVVKELVSR GYNVVAFARE
NAGIKGKMGR EDIVKEFHGA EVRFGSVLDP ASLRDVAFKD PVDVVVSCLA SRTGGKKDSW
LIDYTATKNS LDVARASGAK HFVLLSAICV QKPLLEFQKA KLQFESDLQA AGDITYSIVR
PTAFFKSIAG QIDIVKKGNP YVMFGDGNLA ACKPISEADL ASFIADCVTE QNKVNKVLPI
GGPSKAFTAK QQADLLFNIT GLPPKYFPVP VALMDGMIGL FDSLAKLFPQ LEDSAEFARI
GKYYATESML VYDEARGVYR KTKRLVTART RWKTSSLVQ

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

Number of amino acids: 339

Molecular weight: 37034.9

Theoretical pI: 9.40

Amino acid composition: Ala (A) 40 11.8% Arg (R) 19 5.6% Asn (N) 8 2.4% Asp (D) 22 6.5% Cys (C) 4 1.2% Gln (Q) 11 3.2% Glu (E) 14 4.1% Gly (G) 24 7.1% His (H) 2 0.6% Ile (I) 16 4.7% Leu (L) 27 8.0% Lys (K) 29 8.6% Met (M) 7 2.1% Phe (F) 18 5.3% Pro (P) 15 4.4% Ser (S) 21 6.2% Thr (T) 14 4.1% Trp (W) 2 0.6% Tyr (Y) 11 3.2% Val (V) 35 10.3% 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): 36 Total number of positively charged residues (Arg + Lys): 48

Atomic composition:

Carbon C 1670 Hydrogen H 2668 Nitrogen N 450 Oxygen O 477 Sulfur S 11

Formula: C1670H2668N450O477S11 Total number of atoms: 5276

Extinction coefficients:

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

Ext. coefficient 27640 Abs 0.1% (=1 g/l) 0.746, assuming all pairs of Cys residues form cystines


Ext. coefficient 27390 Abs 0.1% (=1 g/l) 0.740, 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 31.02 This classifies the protein as stable.


Aliphatic index: 91.21

Grand average of hydropathicity (GRAVY): -0.019

Source

Chlamydomonas reinhardtii

References