Coding

Part:BBa_K1796007

Designed by: Nannan Xie   Group: iGEM15_SCU_China   (2015-09-17)
Revision as of 22:09, 18 September 2015 by Nieyi (Talk | contribs) (→‎Parametre of Protein)

nifB from Paenibacillus sp. WLY78

essential for biosynthesis of the active-site nitrogenase cofactor and encodes a radical A-adenosylmethionine(SAM)-dependent enzyme that inserts the central carbon atom into the eight-Fe core of nifB cofactor(nifB-co).

Sequence and Features


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Illegal EcoRI site found at 1156
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal EcoRI site found at 1156
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal EcoRI site found at 1156
  • 23
    INCOMPATIBLE WITH RFC[23]
    Illegal EcoRI site found at 1156
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal EcoRI site found at 1156
    Illegal AgeI site found at 129
    Illegal AgeI site found at 1089
    Illegal AgeI site found at 1444
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI.rc site found at 1261


Parametre of Protein

Number of amino acids: 499

Molecular weight: 54869.8

Theoretical pI: 6.64

Amino acid composition: 

Ala (A) 46 9.2%

Arg (R) 35 7.0%

Asn (N) 17 3.4%

Asp (D) 23 4.6%

Cys (C) 16 3.2%

Gln (Q) 19 3.8%

Glu (E) 40 8.0%

Gly (G) 42 8.4%

His (H) 17 3.4%

Ile (I) 30 6.0%

Leu (L) 27 9.2%

Lys (K) 14 4.8%

Met (M) 11 3.7%

Phe (F) 9 3.1%

Pro (P) 8 2.7%

Ser (S) 9 3.1%

Thr (T) 17 5.8%

Trp (W) 0 0.0%

Tyr (Y) 8 2.7%

Val (V) 17 5.8%

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): 43

Total number of positively charged residues (Arg + Lys): 27

Atomic composition:Carbon C 1400

Hydrogen H 2248

Nitrogen N 386

Oxygen O 444

Sulfur S 17

Formula: C1400H2248N386O444S17Total number of atoms: 4495

Extinction coefficients:This protein does not contain any Trp residues. Experience shows that

this could result in more than 10% error in the computed extinction coefficient.

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

Ext. coefficient 12295

Abs 0.1% (=1 g/l) 0.383, assuming all pairs of Cys residues form cystines

Ext. coefficient 11920

Abs 0.1% (=1 g/l) 0.371, assuming all Cys residues are reduced

Estimated half-life:The N-terminal of the sequence considered is H (His).

The estimated half-life is: 3.5 hours (mammalian reticulocytes, in vitro).

10 min (yeast, in vivo).

>10 hours (Escherichia coli, in vivo).

Instability index:The instability index (II) is computed to be 38.27

This classifies the protein as stable.

Aliphatic index: 90.61

Grand average of hydropathicity (GRAVY): -0.185

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