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]
Parameter of Protein
Number of amino acids: 482
Molecular weight: 54220.4
Theoretical pI: 6.06
Amino acid composition:
Ala (A) 30 6.2%
Arg (R) 25 5.2%
Asn (N) 14 2.9%
Asp (D) 27 5.6%
Cys (C) 11 2.3%
Gln (Q) 15 3.1%
Glu (E) 38 7.9%
Gly (G) 47 9.8%
His (H) 13 2.7%
Ile (I) 42 8.7%
Leu (L) 29 6.0%
Lys (K) 33 6.8%
Met (M) 23 4.8%
Phe (F) 16 3.3%
Pro (P) 20 4.1%
Ser (S) 24 5.0%
Thr (T) 20 4.1%
Trp (W) 7 1.5%
Tyr (Y) 20 4.1%
Val (V) 28 5.8%
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): 65
Total number of positively charged residues (Arg + Lys): 58
Atomic composition:Carbon C 2406
Hydrogen H 3774
Nitrogen N 652
Oxygen O 706
Sulfur S 34
Formula: C2406H3774N652O706S34Total number of atoms: 7572
Extinction coefficients:Extinction coefficients are in units of M-1 cm-1, at 280 nm measured in water.
Ext. coefficient 68925
Abs 0.1% (=1 g/l) 1.271, assuming all pairs of Cys residues form cystines
Ext. coefficient 68300
Abs 0.1% (=1 g/l) 1.260, 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 42.80
This classifies the protein as unstable.
Aliphatic index: 80.52
Grand average of hydropathicity (GRAVY): -0.293
Aliphatic index: 92.50
Grand average of hydropathicity (GRAVY): -0.161
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