Difference between revisions of "Part:BBa K1796009"

Latest revision as of 01:36, 19 September 2015

nifK promoted from Paenibacillus sp. WLY78

Function: β subunits of dinitrogease which also called FeMo protein.NifK encode a metallocluster: the P-cluster, a [8Fe-7S] cluster which shuttles electrons to FeMo-co.

We abtained the sequences from genomes of Paenibacillus sp. WLY78. First, we promoted it ourselves（done by Nan Wang and Nannan Xie).Then we sent the sequences to synthesis.

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
INCOMPATIBLE WITH RFC[25]
Illegal AgeI site found at 342
Illegal AgeI site found at 715
Illegal AgeI site found at 1182
1000
COMPATIBLE WITH RFC[1000]

Parameter of Protein

Number of amino acids: 508

Molecular weight: 56303.1

Theoretical pI: 5.61

Amino acid composition:

Ala (A) 47 9.3%

Arg (R) 28 5.5%

Asn (N) 15 3.0%

Asp (D) 28 5.5%

Cys (C) 8 1.6%

Gln (Q) 19 3.7%

Glu (E) 36 7.1%

Gly (G) 40 7.9%

His (H) 17 3.3%

Ile (I) 24 4.7%

Leu (L) 50 9.8%

Lys (K) 21 4.1%

Met (M) 18 3.5%

Phe (F) 23 4.5%

Pro (P) 26 5.1%

Ser (S) 31 6.1%

Thr (T) 28 5.5%

Trp (W) 2 0.4%

Tyr (Y) 19 3.7%

Val (V) 28 5.5%

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): 64

Total number of positively charged residues (Arg + Lys): 49

Atomic composition:Carbon C 2497

Hydrogen H 3897

Nitrogen N 683

Oxygen O 749

Sulfur S 26

Formula: C2497H3897N683O749S26Total number of atoms: 7852

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

Ext. coefficient 39810

Abs 0.1% (=1 g/l) 0.707, assuming all pairs of Cys residues form cystines

Ext. coefficient 39310

Abs 0.1% (=1 g/l) 0.698, assuming all Cys residues are reduced

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

The estimated half-life is: 1.9 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 44.30

This classifies the protein as unstable.

Aliphatic index: 82.05

Grand average of hydropathicity (GRAVY): -0.226

@@ Line 20: / Line 20: @@
 ==Parameter of Protein==
-<p>	Number of amino acids: 516			</p>
+<p>	Number of amino acids: 508			</p>
 <p>				</p>
-<p>	Molecular weight: 56965.8			</p>
+<p>	Molecular weight: 56303.1			</p>
 <p>				</p>
-<p>	Theoretical pI: 5.55			</p>
+<p>	Theoretical pI: 5.61			</p>
 <p>				</p>
 <p>	Amino acid composition: 			</p>
 <p>				</p>
-<p>	Ala (A)  49       9.5%			</p>
+<p>	Ala (A)  47       9.3%			</p>
 <p>				</p>
-<p>	Arg (R)  28       5.4%			</p>
+<p>	Arg (R)  28       5.5%			</p>
 <p>				</p>
-<p>	Asn (N)  15       2.9%			</p>
+<p>	Asn (N)  15       3.0%			</p>
 <p>				</p>
-<p>	Asp (D)  29       5.6%			</p>
+<p>	Asp (D)  28       5.5%			</p>
 <p>				</p>
-<p>	Cys (C)   9       1.7%			</p>
+<p>	Cys (C)   8       1.6%			</p>
 <p>				</p>
 <p>	Gln (Q)  19       3.7%			</p>
 <p>				</p>
-<p>	Glu (E)  36       7.0%			</p>
+<p>	Glu (E)  36       7.1%			</p>
 <p>				</p>
-<p>	Gly (G)  43       8.3%			</p>
+<p>	Gly (G)  40       7.9%			</p>
 <p>				</p>
 <p>	His (H)  17       3.3%			</p>
@@ Line 48: / Line 48: @@
 <p>	Ile (I)  24       4.7%			</p>
 <p>				</p>
-<p>	Leu (L)  50       9.7%			</p>
+<p>	Leu (L)  50       9.8%			</p>
 <p>				</p>
 <p>	Lys (K)  21       4.1%			</p>
 <p>				</p>
-<p>	Met (M)  19       3.7%			</p>
+<p>	Met (M)  18       3.5%			</p>
 <p>				</p>
 <p>	Phe (F)  23       4.5%			</p>
 <p>				</p>
-<p>	Pro (P)  26       5.0%			</p>
+<p>	Pro (P)  26       5.1%			</p>
 <p>				</p>
-<p>	Ser (S)  31       6.0%			</p>
+<p>	Ser (S)  31       6.1%			</p>
 <p>				</p>
-<p>	Thr (T)  28       5.4%			</p>
+<p>	Thr (T)  28       5.5%			</p>
 <p>				</p>
 <p>	Trp (W)   2       0.4%			</p>
@@ Line 66: / Line 66: @@
 <p>	Tyr (Y)  19       3.7%			</p>
 <p>				</p>
-<p>	Val (V)  28       5.4%			</p>
+<p>	Val (V)  28       5.5%			</p>
 <p>				</p>
 <p>	Pyl (O)   0       0.0%			</p>
@@ Line 78: / Line 78: @@
 <p>	 (X)   0          0.0%			</p>
 <p>				</p>
-<p>	Total number of negatively charged residues (Asp + Glu): 65			</p>
+<p>	Total number of negatively charged residues (Asp + Glu): 64			</p>
 <p>	Total number of positively charged residues (Arg + Lys): 49			</p>
 <p>				</p>
-<p>	Atomic composition:Carbon      C              2521			</p>
+<p>	Atomic composition:Carbon      C              2497			</p>
-<p>	Hydrogen    H         3935			</p>
+<p>	Hydrogen    H         3897			</p>
-<p>	Nitrogen    N          691			</p>
+<p>	Nitrogen    N          683			</p>
-<p>	Oxygen      O          759			</p>
+<p>	Oxygen      O          749			</p>
-<p>	Sulfur      S           28			</p>
+<p>	Sulfur      S           26			</p>
 <p>				</p>
-<p>	Formula: C2521H3935N691O759S28Total number of atoms: 7934			</p>
+<p>	Formula: C2497H3897N683O749S26Total number of atoms: 7852			</p>
 <p>				</p>
 <p>	Extinction coefficients:Extinction coefficients are in units of  M-1 cm-1, at 280 nm measured in water.			</p>
 <p>				</p>
 <p>	Ext. coefficient    39810			</p>
-<p>	Abs 0.1% (=1 g/l)   0.699, assuming all pairs of Cys residues form cystines			</p>
+<p>	Abs 0.1% (=1 g/l)   0.707, assuming all pairs of Cys residues form cystines			</p>
 <p>				</p>
 <p>				</p>
 <p>	Ext. coefficient    39310			</p>
-<p>	Abs 0.1% (=1 g/l)   0.690, assuming all Cys residues are reduced			</p>
+<p>	Abs 0.1% (=1 g/l)   0.698, 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>	Estimated half-life:The N-terminal of the sequence considered is S (Ser).			</p>
 <p>				</p>
-<p>	The estimated half-life is: 4.4 hours (mammalian reticulocytes, in vitro).			</p>
+<p>	The estimated half-life is: 1.9 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 44.53			</p>
+<p>	Instability index:The instability index (II) is computed to be 44.30			</p>
 <p>	This classifies the protein as unstable.			</p>
 <p>				</p>
 <p>				</p>
 <p>				</p>
-<p>	Aliphatic index: 81.16			</p>
+<p>	Aliphatic index: 82.05			</p>
+<p>				</p>
+<p>	Grand average of hydropathicity (GRAVY): -0.226			</p>
+<p>				</p>
+<p>				</p>
 <p>				</p>
-<p>	Grand average of hydropathicity (GRAVY): -0.216			</p>