Difference between revisions of "Part:BBa K1796007"
Line 18: Line 18:
  
 
==Parametre of Protein==
 
==Parametre of Protein==
−
<p> Number of amino acids: 1524 </p>
+
Number of amino acids: 499
−
<p> </p>
+
 
−
<p> Molecular weight: 124814.2 </p>
+
Molecular weight: 54869.8
−
<p> </p>
+
 
−
<p> Theoretical pI: 4.97 </p>
+
Theoretical pI: 6.64
−
<p> </p>
+
 
−
<p> Amino acid composition: </p>
+
Amino acid composition:  
−
<p> </p>
+
Ala (A) 46   9.2%
−
<p> Ala (A) 403      26.4% </p>
+
Arg (R) 35   7.0%
−
<p> </p>
+
Asn (N) 17   3.4%
−
<p> Arg (R)  0      0.0% </p>
+
Asp (D) 23   4.6%
−
<p> </p>
+
Cys (C) 16   3.2%
−
<p> Asn (N)  0      0.0% </p>
+
Gln (Q) 19   3.8%
−
<p> </p>
+
Glu (E) 40   8.0%
−
<p> Asp (D)  0      0.0% </p>
+
Gly (G) 42   8.4%
−
<p> </p>
+
His (H) 17   3.4%
−
<p> Cys (C) 365      24.0% </p>
+
Ile (I) 30   6.0%
−
<p> </p>
+
Leu (L) 41   8.2%
−
<p> Gln (Q)  0      0.0% </p>
+
Lys (K) 25   5.0%
−
<p> </p>
+
Met (M) 11   2.2%
−
<p> Glu (E)  0      0.0% </p>
+
Phe (F) 13   2.6%
−
<p> </p>
+
Pro (P) 25   5.0%
−
<p> Gly (G) 407      26.7% </p>
+
Ser (S) 27   5.4%
−
<p> </p>
+
Thr (T) 17   3.4%
−
<p> His (H)  0      0.0% </p>
+
Trp (W)  2   0.4%
−
<p> </p>
+
Tyr (Y) 13   2.6%
−
<p> Ile (I)  0      0.0% </p>
+
Val (V) 40   8.0%
−
<p> </p>
+
Pyl (O)  0   0.0%
−
<p> Leu (L)  0      0.0% </p>
+
Sec (U)  0   0.0%
−
<p> </p>
+
 
−
<p> Lys (K)  0      0.0% </p>
+
  (B)  0   0.0%
−
<p> </p>
+
  (Z)  0   0.0%
−
<p> Met (M)  0      0.0% </p>
+
  (X)  0   0.0%
−
<p> </p>
+
 
−
<p> Phe (F)  0      0.0% </p>
+
 
−
<p> </p>
+
Total number of negatively charged residues (Asp + Glu): 63
−
<p> Pro (P)  0      0.0% </p>
+
Total number of positively charged residues (Arg + Lys): 60
−
<p> </p>
+
 
−
<p> Ser (S)  0      0.0% </p>
+
Atomic composition:
−
<p> </p>
+
 
−
<p> Thr (T) 349      22.9% </p>
+
Carbon      C       2398
−
<p> </p>
+
Hydrogen    H       3849
−
<p> Trp (W)  0      0.0% </p>
+
Nitrogen    N       701
−
<p> </p>
+
Oxygen      O       719
−
<p> Tyr (Y)  0      0.0% </p>
+
Sulfur      S         27
−
<p> </p>
+
 
−
<p> Val (V)  0      0.0% </p>
+
Formula: C2398H3849N701O719S27
−
<p> </p>
+
Total number of atoms: 7694
−
<p> Pyl (O)  0       0.0% </p>
+
 
−
<p> </p>
+
Extinction coefficients:
−
<p> Sec (U)  0       0.0% </p>
+
 
−
<p> </p>
+
Extinction coefficients are in units of  M-1 cm-1, at 280 nm measured in water.
−
<p> (B)  0         0.0% </p>
+
 
−
<p> </p>
+
Ext. coefficient    31370
−
<p> (Z)  0         0.0% </p>
+
Abs 0.1% (=1 g/l)  0.572, assuming all pairs of Cys residues form cystines
−
<p> </p>
+
 
−
<p> (X)  0         0.0% </p>
+
 
−
<p> </p>
+
Ext. coefficient   30370
−
<p> Total number of negatively charged residues (Asp + Glu): 0 </p>
+
Abs 0.1% (=1 g/l)  0.553, assuming all Cys residues are reduced
−
<p> Total number of positively charged residues (Arg + Lys): 0 </p>
+
 
−
<p> </p>
+
Estimated half-life:
−
<p> Atomic composition:Carbon      C             4514 </p>
+
 
−
<p> Hydrogen    H         7506 </p>
+
The N-terminal of the sequence considered is M (Met).
−
<p> Nitrogen    N         1524 </p>
+
 
−
<p> Oxygen      O         1874 </p>
+
The estimated half-life is: 30 hours (mammalian reticulocytes, in vitro).
−
<p> Sulfur      S         365 </p>
+
                             >20 hours (yeast, in vivo).
−
<p> </p>
+
                             >10 hours (Escherichia coli, in vivo).
−
<p> Formula: C4514H7506N1524O1874S365Total number of atoms: 15783 </p>
+
 
−
<p> </p>
+
 
−
<p> Extinction coefficients:This protein does not contain any Trp residues. Experience shows that </p>
+
Instability index:
−
<p> this could result in more than 10% error in the computed extinction coefficient. </p>
+
 
−
<p> </p>
+
The instability index (II) is computed to be 43.03
−
<p> Extinction coefficients are in units of  M-1 cm-1, at 280 nm measured in water. </p>
+
This classifies the protein as unstable.
−
<p> </p>
+
 
−
<p> Ext. coefficient    22750 </p>
+
 
−
<p> Abs 0.1% (=1 g/l)  0.182, assuming all pairs of Cys residues form cystines </p>
+
 
−
<p> </p>
+
Aliphatic index: 87.96
−
<p> </p>
+
 
−
<p> Ext. coefficient       0 </p>
+
Grand average of hydropathicity (GRAVY): -0.253
−
<p> Abs 0.1% (=1 g/l)  0.000, assuming all Cys residues are reduced </p>
+
−
<p> </p>
+
−
<p> Estimated half-life:The N-terminal of the sequence considered is A (Ala). </p>
+
−
<p> </p>
+
−
<p> The estimated half-life is: 4.4 hours (mammalian reticulocytes, in vitro). </p>
+
−
<p>                             >20 hours (yeast, in vivo). </p>
+
−
<p>                             >10 hours (Escherichia coli, in vivo). </p>
+
−
<p> </p>
+
−
<p> </p>
+
−
<p> Instability index:The instability index (II) is computed to be 39.16 </p>
+
−
<p> This classifies the protein as stable. </p>
+
−
<p> </p>
+
−
<p> </p>
+
−
<p> </p>
+
−
<p> Aliphatic index: 26.44 </p>
+
−
<p> </p>
+
−
<p> Grand average of hydropathicity (GRAVY): 0.808 </p>
+

Revision as of 22:02, 18 September 2015

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) 41 8.2% Lys (K) 25 5.0% Met (M) 11 2.2% Phe (F) 13 2.6% Pro (P) 25 5.0% Ser (S) 27 5.4% Thr (T) 17 3.4% Trp (W) 2 0.4% Tyr (Y) 13 2.6% Val (V) 40 8.0% 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): 63 Total number of positively charged residues (Arg + Lys): 60

Atomic composition:

Carbon C 2398 Hydrogen H 3849 Nitrogen N 701 Oxygen O 719 Sulfur S 27

Formula: C2398H3849N701O719S27 Total number of atoms: 7694

Extinction coefficients:

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

Ext. coefficient 31370 Abs 0.1% (=1 g/l) 0.572, assuming all pairs of Cys residues form cystines


Ext. coefficient 30370 Abs 0.1% (=1 g/l) 0.553, 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 43.03 This classifies the protein as unstable.


Aliphatic index: 87.96

Grand average of hydropathicity (GRAVY): -0.253