Difference between revisions of "Part:BBa K1796006"

Revision as of 01:24, 19 September 2015

Dinitrogenase reductase(nifH)

The nifH encoding dinitrogenase reductase(also called Fe protein) is an important gene in nitrogen fixation. The protein is a homodimer bridged by an intersubunit [4Fe-4S] cluster that serves as the obligate electron donor to the MoFe protein. Sequence and Features

Assembly Compatibility:

10
COMPATIBLE WITH RFC[10]
12
COMPATIBLE WITH RFC[12]
21
COMPATIBLE WITH RFC[21]
23
COMPATIBLE WITH RFC[23]
25
COMPATIBLE WITH RFC[25]
1000
COMPATIBLE WITH RFC[1000]

Parameter of Protein

Number of amino acids: 288

Molecular weight: 31494.9

Theoretical pI: 4.78

Amino acid composition:聽

Ala (A) 26 9.0%

Arg (R) 13 4.5%

Asn (N) 15 5.2%

Asp (D) 14 4.9%

Cys (C) 6 2.1%

Gln (Q) 13 4.5%

Glu (E) 28 9.7%

Gly (G) 28 9.7%

His (H) 4 1.4%

Ile (I) 22 7.6%

Leu (L) 27 9.4%

Lys (K) 14 4.9%

Met (M) 11 3.8%

Phe (F) 8 2.8%

Pro (P) 8 2.8%

Ser (S) 9 3.1%

Thr (T) 17 5.9%

Trp (W) 0 0.0%

Tyr (Y) 8 2.8%

Val (V) 17 5.9%

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): 42

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

Atomic composition:Carbon C 1372

Hydrogen H 2213

Nitrogen N 377

Oxygen O 435

Sulfur S 17

Formula: C1372H2213N377O435S17Total number of atoms: 4414

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) 0.390, assuming all pairs of Cys residues form cystines

Ext. coefficient 11920

Abs 0.1% (=1 g/l) 0.378, 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 39.05

This classifies the protein as stable.

Aliphatic index: 92.50

Grand average of hydropathicity (GRAVY): -0.161

@@ Line 16: / Line 16: @@
 <!-- -->
-==Parametre of Protein==
+==Parameter of Protein==
-<p>	Number of amino acids: 294			</p>
+<p>	Number of amino acids: 288			</p>
 <p>				</p>
-<p>	Molecular weight: 32136.5			</p>
+<p>	Molecular weight: 31494.9			</p>
 <p>				</p>
-<p>	Theoretical pI: 4.79			</p>
+<p>	Theoretical pI: 4.78			</p>
 <p>				</p>
-<p>	Amino acid composition: 			</p>
+<p>	Amino acid composition:聽			</p>
 <p>				</p>
-<p>	Ala (A)  26       8.8%			</p>
+<p>	Ala (A)  26       9.0%			</p>
 <p>				</p>
-<p>	Arg (R)  13       4.4%			</p>
+<p>	Arg (R)  13       4.5%			</p>
 <p>				</p>
-<p>	Asn (N)  16       5.4%			</p>
+<p>	Asn (N)  15       5.2%			</p>
 <p>				</p>
-<p>	Asp (D)  14       4.8%			</p>
+<p>	Asp (D)  14       4.9%			</p>
 <p>				</p>
-<p>	Cys (C)   6       2.0%			</p>
+<p>	Cys (C)   6       2.1%			</p>
 <p>				</p>
-<p>	Gln (Q)  13       4.4%			</p>
+<p>	Gln (Q)  13       4.5%			</p>
 <p>				</p>
-<p>	Glu (E)  29       9.9%			</p>
+<p>	Glu (E)  28       9.7%			</p>
 <p>				</p>
-<p>	Gly (G)  30      10.2%			</p>
+<p>	Gly (G)  28       9.7%			</p>
 <p>				</p>
-<p>	His (H)   5       1.7%			</p>
+<p>	His (H)   4       1.4%			</p>
 <p>				</p>
-<p>	Ile (I)  22       7.5%			</p>
+<p>	Ile (I)  22       7.6%			</p>
 <p>				</p>
-<p>	Leu (L)  27       9.2%			</p>
+<p>	Leu (L)  27       9.4%			</p>
 <p>				</p>
-<p>	Lys (K)  14       4.8%			</p>
+<p>	Lys (K)  14       4.9%			</p>
 <p>				</p>
-<p>	Met (M)  11       3.7%			</p>
+<p>	Met (M)  11       3.8%			</p>
 <p>				</p>
-<p>	Phe (F)   9       3.1%			</p>
+<p>	Phe (F)   8       2.8%			</p>
 <p>				</p>
-<p>	Pro (P)   8       2.7%			</p>
+<p>	Pro (P)   8       2.8%			</p>
 <p>				</p>
 <p>	Ser (S)   9       3.1%			</p>
 <p>				</p>
-<p>	Thr (T)  17       5.8%			</p>
+<p>	Thr (T)  17       5.9%			</p>
 <p>				</p>
 <p>	Trp (W)   0       0.0%			</p>
 <p>				</p>
-<p>	Tyr (Y)   8       2.7%			</p>
+<p>	Tyr (Y)   8       2.8%			</p>
 <p>				</p>
-<p>	Val (V)  17       5.8%			</p>
+<p>	Val (V)  17       5.9%			</p>
 <p>				</p>
 <p>	Pyl (O)   0       0.0%			</p>
@@ Line 75: / Line 75: @@
 <p>	 (X)   0          0.0%			</p>
 <p>				</p>
-<p>	Total number of negatively charged residues (Asp + Glu): 43			</p>
+<p>	Total number of negatively charged residues (Asp + Glu): 42			</p>
 <p>	Total number of positively charged residues (Arg + Lys): 27			</p>
 <p>				</p>
-<p>	Atomic composition:Carbon      C              1400			</p>
+<p>	Atomic composition:Carbon      C              1372			</p>
-<p>	Hydrogen    H         2248			</p>
+<p>	Hydrogen    H         2213			</p>
-<p>	Nitrogen    N          386			</p>
+<p>	Nitrogen    N          377			</p>
-<p>	Oxygen      O          444			</p>
+<p>	Oxygen      O          435			</p>
 <p>	Sulfur      S           17			</p>
 <p>				</p>
-<p>	Formula: C1400H2248N386O444S17Total number of atoms: 4495			</p>
+<p>	Formula: C1372H2213N377O435S17Total number of atoms: 4414			</p>
 <p>				</p>
 <p>	Extinction coefficients:This protein does not contain any Trp residues. Experience shows that			</p>
@@ Line 92: / Line 92: @@
 <p>				</p>
 <p>	Ext. coefficient    12295			</p>
-<p>	Abs 0.1% (=1 g/l)   0.383, assuming all pairs of Cys residues form cystines			</p>
+<p>	Abs 0.1% (=1 g/l)   0.390, assuming all pairs of Cys residues form cystines			</p>
 <p>				</p>
 <p>				</p>
 <p>	Ext. coefficient    11920			</p>
-<p>	Abs 0.1% (=1 g/l)   0.371, assuming all Cys residues are reduced			</p>
+<p>	Abs 0.1% (=1 g/l)   0.378, assuming all Cys residues are reduced			</p>
 <p>				</p>
-<p>	Estimated half-life:The N-terminal of the sequence considered is H (His).			</p>
+<p>	Estimated half-life:The N-terminal of the sequence considered is M (Met).			</p>
 <p>				</p>
-<p>	The estimated half-life is: 3.5 hours (mammalian reticulocytes, in vitro).			</p>
+<p>	The estimated half-life is: 30 hours (mammalian reticulocytes, in vitro).			</p>
-<p>	                            10 min (yeast, in vivo).			</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 38.27			</p>
+<p>	Instability index:The instability index (II) is computed to be 39.05			</p>
 <p>	This classifies the protein as stable.			</p>
 <p>				</p>
 <p>				</p>
 <p>				</p>
-<p>	Aliphatic index: 90.61			</p>
+<p>	Aliphatic index: 92.50			</p>
 <p>				</p>
-<p>	Grand average of hydropathicity (GRAVY): -0.185			</p>
+<p>	Grand average of hydropathicity (GRAVY): -0.161			</p>