Difference between revisions of "Part:BBa K1796011"
(→‎Parameter of Protein)
 
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==Parameter of Protein==
 
==Parameter of Protein==
−
<p> Number of amino acids: 1434 </p>
+
<p> Number of amino acids: 467 </p>
 
<p> </p>
 
<p> </p>
−
<p> Molecular weight: 118547.3 </p>
+
<p> Molecular weight: 50684.0 </p>
 
<p> </p>
 
<p> </p>
−
<p> Theoretical pI: 4.97 </p>
+
<p> Theoretical pI: 7.21 </p>
 
<p> </p>
 
<p> </p>
−
<p> Amino acid composition:聽 </p>
+
<p> Amino acid composition:  </p>
 
<p> </p>
 
<p> </p>
−
<p> Ala (A) 316      22.0% </p>
+
<p> Ala (A) 45      9.6% </p>
 
<p> </p>
 
<p> </p>
−
<p> Arg (R)   0       0.0% </p>
+
<p> Arg (R) 30       6.4% </p>
 
<p> </p>
 
<p> </p>
−
<p> Asn (N)   0       0.0% </p>
+
<p> Asn (N) 10       2.1% </p>
 
<p> </p>
 
<p> </p>
−
<p> Asp (D)   0       0.0% </p>
+
<p> Asp (D) 22       4.7% </p>
 
<p> </p>
 
<p> </p>
−
<p> Cys (C) 365      25.5% </p>
+
<p> Cys (C)   8      1.7% </p>
 
<p> </p>
 
<p> </p>
−
<p> Gln (Q)   0       0.0% </p>
+
<p> Gln (Q) 14       3.0% </p>
 
<p> </p>
 
<p> </p>
−
<p> Glu (E)   0       0.0% </p>
+
<p> Glu (E) 25       5.4% </p>
 
<p> </p>
 
<p> </p>
−
<p> Gly (G) 402      28.0% </p>
+
<p> Gly (G) 41      8.8% </p>
 
<p> </p>
 
<p> </p>
−
<p> His (H)   0       0.0% </p>
+
<p> His (H) 15       3.2% </p>
 
<p> </p>
 
<p> </p>
−
<p> Ile (I)   0       0.0% </p>
+
<p> Ile (I) 21       4.5% </p>
 
<p> </p>
 
<p> </p>
−
<p> Leu (L)   0      0.0% </p>
+
<p> Leu (L) 56      12.0% </p>
 
<p> </p>
 
<p> </p>
−
<p> Lys (K)   0       0.0% </p>
+
<p> Lys (K) 17       3.6% </p>
 
<p> </p>
 
<p> </p>
−
<p> Met (M)   0       0.0% </p>
+
<p> Met (M) 11       2.4% </p>
 
<p> </p>
 
<p> </p>
−
<p> Phe (F)   0       0.0% </p>
+
<p> Phe (F) 15       3.2% </p>
 
<p> </p>
 
<p> </p>
−
<p> Pro (P)   0       0.0% </p>
+
<p> Pro (P) 23       4.9% </p>
 
<p> </p>
 
<p> </p>
−
<p> Ser (S)   0       0.0% </p>
+
<p> Ser (S) 44       9.4% </p>
 
<p> </p>
 
<p> </p>
−
<p> Thr (T) 351      24.5% </p>
+
<p> Thr (T) 23      4.9% </p>
 
<p> </p>
 
<p> </p>
−
<p> Trp (W)  0       0.0% </p>
+
<p> Trp (W)  8       1.7% </p>
 
<p> </p>
 
<p> </p>
−
<p> Tyr (Y)  0       0.0% </p>
+
<p> Tyr (Y)  9       1.9% </p>
 
<p> </p>
 
<p> </p>
−
<p> Val (V)   0       0.0% </p>
+
<p> Val (V) 30       6.4% </p>
 
<p> </p>
 
<p> </p>
 
<p> Pyl (O)  0      0.0% </p>
 
<p> Pyl (O)  0      0.0% </p>
Line 76: Line 76:
 
<p> (X)  0          0.0% </p>
 
<p> (X)  0          0.0% </p>
 
<p> </p>
 
<p> </p>
−
<p> Total number of negatively charged residues (Asp + Glu): 0 </p>
+
<p> Total number of negatively charged residues (Asp + Glu): 47 </p>
−
<p> Total number of positively charged residues (Arg + Lys): 0 </p>
+
<p> Total number of positively charged residues (Arg + Lys): 47 </p>
 
<p> </p>
 
<p> </p>
−
<p> Atomic composition:Carbon      C              4251 </p>
+
<p> Atomic composition:Carbon      C              2246 </p>
−
<p> Hydrogen    H        7070 </p>
+
<p> Hydrogen    H        3570 </p>
−
<p> Nitrogen    N         1434 </p>
+
<p> Nitrogen    N         636 </p>
−
<p> Oxygen      O         1786 </p>
+
<p> Oxygen      O         662 </p>
−
<p> Sulfur      S         365 </p>
+
<p> Sulfur      S           19 </p>
 
<p> </p>
 
<p> </p>
−
<p> Formula: C4251H7070N1434O1786S365Total number of atoms: 14906 </p>
+
<p> Formula: C2246H3570N636O662S19Total number of atoms: 7133 </p>
 
<p> </p>
 
<p> </p>
−
<p> Extinction coefficients:This protein does not contain any Trp residues. Experience shows that </p>
+
<p> Extinction coefficients:Extinction coefficients are in units of  M-1 cm-1, at 280 nm measured in water. </p>
−
<p> this could result in more than 10% error in the computed extinction coefficient. </p>
+
 
<p> </p>
 
<p> </p>
−
<p> Extinction coefficients are in units of  M-1 cm-1, at 280 nm measured in water. </p>
+
<p> Ext. coefficient    57910 </p>
 +
<p> Abs 0.1% (=1 g/l)  1.143, assuming all pairs of Cys residues form cystines </p>
 
<p> </p>
 
<p> </p>
−
<p> Ext. coefficient    22750 </p>
 
−
<p> Abs 0.1% (=1 g/l)  0.192, assuming all pairs of Cys residues form cystines </p>
 
 
<p> </p>
 
<p> </p>
 +
<p> Ext. coefficient    57410 </p>
 +
<p> Abs 0.1% (=1 g/l)  1.133, assuming all Cys residues are reduced </p>
 
<p> </p>
 
<p> </p>
−
<p> Ext. coefficient        0 </p>
+
<p> Estimated half-life:The N-terminal of the sequence considered is T (Thr). </p>
−
<p> Abs 0.1% (=1 g/l)   0.000, assuming all Cys residues are reduced </p>
+
 
<p> </p>
 
<p> </p>
−
<p> Estimated half-life:The N-terminal of the sequence considered is G (Gly). </p>
+
<p> The estimated half-life is: 7.2 hours (mammalian reticulocytes, in vitro). </p>
−
<p> </p>
+
−
<p> The estimated half-life is: 30 hours (mammalian reticulocytes, in vitro). </p>
+
 
<p>                             >20 hours (yeast, in vivo). </p>
 
<p>                             >20 hours (yeast, in vivo). </p>
 
<p>                             >10 hours (Escherichia coli, in vivo). </p>
 
<p>                             >10 hours (Escherichia coli, in vivo). </p>
 
<p> </p>
 
<p> </p>
 
<p> </p>
 
<p> </p>
−
<p> Instability index:The instability index (II) is computed to be 44.79 </p>
+
<p> Instability index:The instability index (II) is computed to be 41.38 </p>
 
<p> This classifies the protein as unstable. </p>
 
<p> This classifies the protein as unstable. </p>
 
<p> </p>
 
<p> </p>
 
<p> </p>
 
<p> </p>
 
<p> </p>
 
<p> </p>
−
<p> Aliphatic index: 22.04 </p>
+
<p> Aliphatic index: 92.57 </p>
 +
<p> </p>
 +
<p> Grand average of hydropathicity (GRAVY): -0.051 </p>
 +
<p> </p>
 +
<p> </p>
 
<p> </p>
 
<p> </p>
−
<p> Grand average of hydropathicity (GRAVY): 0.750 </p>
 

Latest revision as of 02:02, 19 September 2015

nifN promoted from Paenibacillus sp. WLY78

Function: scaffold gene of nitrogen fixation system

Sequence and Features


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Illegal PstI site found at 319
    Illegal PstI site found at 890
    Illegal PstI site found at 961
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal PstI site found at 319
    Illegal PstI site found at 890
    Illegal PstI site found at 961
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    INCOMPATIBLE WITH RFC[23]
    Illegal PstI site found at 319
    Illegal PstI site found at 890
    Illegal PstI site found at 961
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal PstI site found at 319
    Illegal PstI site found at 890
    Illegal PstI site found at 961
    Illegal NgoMIV site found at 648
    Illegal AgeI site found at 25
    Illegal AgeI site found at 147
    Illegal AgeI site found at 766
    Illegal AgeI site found at 987
  • 1000
    COMPATIBLE WITH RFC[1000]


Parameter of Protein

Number of amino acids: 467

Molecular weight: 50684.0

Theoretical pI: 7.21

Amino acid composition: 

Ala (A) 45 9.6%

Arg (R) 30 6.4%

Asn (N) 10 2.1%

Asp (D) 22 4.7%

Cys (C) 8 1.7%

Gln (Q) 14 3.0%

Glu (E) 25 5.4%

Gly (G) 41 8.8%

His (H) 15 3.2%

Ile (I) 21 4.5%

Leu (L) 56 12.0%

Lys (K) 17 3.6%

Met (M) 11 2.4%

Phe (F) 15 3.2%

Pro (P) 23 4.9%

Ser (S) 44 9.4%

Thr (T) 23 4.9%

Trp (W) 8 1.7%

Tyr (Y) 9 1.9%

Val (V) 30 6.4%

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): 47

Total number of positively charged residues (Arg + Lys): 47

Atomic composition:Carbon C 2246

Hydrogen H 3570

Nitrogen N 636

Oxygen O 662

Sulfur S 19

Formula: C2246H3570N636O662S19Total number of atoms: 7133

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

Ext. coefficient 57910

Abs 0.1% (=1 g/l) 1.143, assuming all pairs of Cys residues form cystines

Ext. coefficient 57410

Abs 0.1% (=1 g/l) 1.133, assuming all Cys residues are reduced

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

The estimated half-life is: 7.2 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 41.38

This classifies the protein as unstable.

Aliphatic index: 92.57

Grand average of hydropathicity (GRAVY): -0.051