Part:BBa_K1796008
nifD promoted from Paenibacillus sp. WLY78
Function: αsubunits of dinitrogease which also called FeMo protein. NifD encode a metallocluster: FeMo-co, a [Mo-7Fe-9S-C-homocitrate] cluster which serves as the active site of substrate binding and reduction. 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, but unfortunately, striction enzyme cut site was involved after they promoted it again. But we were not informed of the error in promotion.After several times failed expriments, we found the problem.We tackled them over the matter, mistakes were corrected, but the correct genes can't arrive on time,it can only arrive after the deadline. Sequence submit is promoted by the synthesis company, containing a PstI in the gene.
Sequence and Features
- 10INCOMPATIBLE WITH RFC[10]Illegal PstI site found at 150
- 12INCOMPATIBLE WITH RFC[12]Illegal PstI site found at 150
- 21INCOMPATIBLE WITH RFC[21]Illegal BglII site found at 1116
- 23INCOMPATIBLE WITH RFC[23]Illegal PstI site found at 150
- 25INCOMPATIBLE WITH RFC[25]Illegal PstI site found at 150
Illegal AgeI site found at 1141 - 1000COMPATIBLE WITH RFC[1000]
Parametre of Protein
Number of amino acids: 1473
Molecular weight: 119881.7
Theoretical pI: 4.98
Amino acid composition:
Ala (A) 402 27.3%
Arg (R) 0 0.0%
Asn (N) 0 0.0%
Asp (D) 0 0.0%
Cys (C) 352 23.9%
Gln (Q) 0 0.0%
Glu (E) 0 0.0%
Gly (G) 402 27.3%
His (H) 0 0.0%
Ile (I) 0 0.0%
Leu (L) 0 0.0%
Lys (K) 0 0.0%
Met (M) 0 0.0%
Phe (F) 0 0.0%
Pro (P) 0 0.0%
Ser (S) 0 0.0%
Thr (T) 317 21.5%
Trp (W) 0 0.0%
Tyr (Y) 0 0.0%
Val (V) 0 0.0%
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): 0
Total number of positively charged residues (Arg + Lys): 0
Atomic composition:Carbon C 4334
Hydrogen H 7197
Nitrogen N 1473
Oxygen O 1791
Sulfur S 352
Formula: C4334H7197N1473O1791S352Total number of atoms: 15147
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 22000
Abs 0.1% (=1 g/l) 0.184, assuming all pairs of Cys residues form cystines
Ext. coefficient 0
Abs 0.1% (=1 g/l) 0.000, assuming all Cys residues are reduced
Estimated half-life:The N-terminal of the sequence considered is C (Cys).
The estimated half-life is: 1.2 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 40.53
This classifies the protein as unstable.
Aliphatic index: 27.29
Grand average of hydropathicity (GRAVY): 0.829
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