Difference between revisions of "Part:BBa K1080001:Design"

Revision as of 10:13, 25 September 2013

ChlH

Design Notes

Amino Acid Sequenc:

MCNVATGPRP PMTTFTGGNK GPAKQQVSLD LRDDGAGMFT STSPEMRRVV PDDVKGRVKV
KVVYVVLEAQ YQSAISAAVK NINAKNSKVC FEVVGYLLEE LRDQKNLDML KEDVASANIF
IGSLIFIEEL AEKIVEAVSP LREKLDACLI FPSMPAVMKL NKLGTFSMAQ LGQSKSVFSE
FIKSARKNND NFEEGLLKLV RTLPKVLKYL PSDKAQDAKN FVNSLQYWLG GNSDNLENLL
LNTVSNYVPA LKGVDFSVAE PTAYPDVGIW HPLASGMYED LKEYLNWYDT RKDMVFAKDA
PVIGLVLQRS HLVTGDEGHY SGVVAELESR GAKVIPVFAG GLDFSAPVKK FFYDPLGSGR
TFVDTVVSLT GFALVGGPAR QDAPKAIEAL KNLNVPYLVS LPLVFQTTEE WLDSELGVHP
VQVALQVALP ELDGAMEPIV FAGRDSNTGK SHSLPDRIAS LCARAVNWAN LRKKRNAEKK
LAVTVFSFPP DKGNVGTAAY LNVFGSIYRV LKNLQREGYD VGALPPSEED LIQSVLTQKE
AKFNSTDLHI AYKMKVDEYQ KLCPYAEALE ENWGKPPGTL NTNGQELLVY GRQYGNVFIG
VQPTFGYEGD PMRLLFSKSA SPHHGFAAYY TFLEKIFKAD AVLHFGTHGS LEFMPGKQVG
MSGVCYPDSL IGTIPNLYYY AANNPSEATI AKRRSYANTI SYLTPPAENA GLYKGLKELK
ELISSYQGMR ESGRAEQICA TIIETAKLCN LDRDVTLPDA DAKDLTMDMR DSVVGQVYRK
LMEIESRLLP CGLHVVGCPP TAEEAVATLV NIAELDRPDN NPPIKGMPGI LARAIGRDIE
SIYSGNNKGV LADVDQLQRI TEASRTCVRE FVKDRTGLNG RIGTNWITNL LKFTGFYVDP
WVRGLQNGEF ASANREELIT LFNYLEFCLT QVVKDNELGA LVEALNGQYV EPGPGGDPIR
NPNVLPTGKN IHALDPQSIP TQAALKSARL VVDRLLDRER DNNGGKYPET IALVLWGTDN
IKTYGESLAQ VMMMVGVKPV ADALGRVNKL EVIPLEELGR PRVDVVVNCS GVFRDLFVNQ
AVENSSWSDE SQLQEMYLKR KSYAFNSDRP GAGGEMQRDV FETAMKTVDV TFQNLDSSEI
SLTDVSHYFD SDPTKLVASL RNDGRTPNAY IADTTTANAQ VRTLGETVRL DARTKLLNPK
WYEGMLASGY EGVREIQKRM TNTMGWSATS GMVDNWVYDE ANSTFIEDAA MAERLMNTNP
NSFRKLVATF LEANGRGYWD AKPEQLERLR QLYMDVEDKI EGVE

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

Number of amino acids: 1364

Molecular weight: 150738.5

Theoretical pI: 5.39

Amino acid composition: Ala (A) 114 8.4% Arg (R) 69 5.1% Asn (N) 79 5.8% Asp (D) 81 5.9% Cys (C) 13 1.0% Gln (Q) 46 3.4% Glu (E) 91 6.7% Gly (G) 100 7.3% His (H) 14 1.0% Ile (I) 51 3.7% Leu (L) 141 10.3% Lys (K) 79 5.8% Met (M) 35 2.6% Phe (F) 50 3.7% Pro (P) 70 5.1% Ser (S) 84 6.2% Thr (T) 69 5.1% Trp (W) 14 1.0% Tyr (Y) 49 3.6% Val (V) 115 8.4% 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): 172 Total number of positively charged residues (Arg + Lys): 148

Atomic composition:

Carbon C 6703 Hydrogen H 10581 Nitrogen N 1817 Oxygen O 2036 Sulfur S 48

Formula: C6703H10581N1817O2036S48 Total number of atoms: 21185

Extinction coefficients:

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

Ext. coefficient 150760 Abs 0.1% (=1 g/l) 1.000, assuming all pairs of Cys residues form cystines

Ext. coefficient 150010 Abs 0.1% (=1 g/l) 0.995, 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 32.83 This classifies the protein as stable.

Aliphatic index: 87.71

Grand average of hydropathicity (GRAVY): -0.260

Source

Chlamydomonas reinhardtii

References