Protein_Domain

Part:BBa_K1617011

Designed by: Johann Bauerfeind   Group: iGEM15_Berlin   (2015-09-23)
Revision as of 23:58, 23 September 2015 by JohannB (Talk | contribs)

D3 domain of S. Typhimurium flagellin

This part codes the D3 domain of the S. Typhimurium flagellin. So far it is the only flagellin D3 domain with a known crystal-structure of a D3 domain.

Figure 1 Crystal-structure of the S. Typhimurium Flagellin Flagellin D3 domain. Animation was created using pymol [PDB 1IO1 ].





Protein data table for BioBrick BBa_ automatically created by the BioBrick-AutoAnnotator version 1.0
Nucleotide sequence in RFC 25, so ATGGCCGGC and ACCGGT were added (in italics) to the 5' and 3' ends: (underlined part encodes the protein)
 ATGGCCGGCGGATCCTAT ... CAGGTGGCGACCGGT
 ORF from nucleotide position -8 to 297 (excluding stop-codon)
Amino acid sequence: (RFC 25 scars in shown in bold, other sequence features underlined; both given below)
1 
101 		MAGGSYADTTIALDNSTFKASATGLGGTDQKIDGDLKFDDTTGKYYAKVTVTGGTGKDGYYEVSVDKTNGEVTLAGGATSPLTGGLPATATEDVKNVQVA
TG*
Sequence features: (with their position in the amino acid sequence, see the list of supported features)
RFC25 scar (shown in bold): 52 to 53, 55 to 56
Amino acid composition:
Ala (A)11 (10.8%)
Arg (R)0 (0.0%)
Asn (N)3 (2.9%)
Asp (D)10 (9.8%)
Cys (C)0 (0.0%)
Gln (Q)2 (2.0%)
Glu (E)3 (2.9%)
Gly (G)17 (16.7%)
His (H)0 (0.0%)
Ile (I)2 (2.0%)
Leu (L)6 (5.9%)
Lys (K)8 (7.8%)
Met (M)1 (1.0%)
Phe (F)2 (2.0%)
Pro (P)2 (2.0%)
Ser (S)5 (4.9%)
Thr (T)17 (16.7%)
Trp (W)0 (0.0%)
Tyr (Y)5 (4.9%)
Val (V)8 (7.8%)
Amino acid counting
Total number:102
Positively charged (Arg+Lys):8 (7.8%)
Negatively charged (Asp+Glu):13 (12.7%)
Aromatic (Phe+His+Try+Tyr):7 (6.9%)
Biochemical parameters
Atomic composition:C441H699N115O161S1
Molecular mass [Da]:10220.1
Theoretical pI:4.37
Extinction coefficient at 280 nm [M-1 cm-1]:7450 / 7450 (all Cys red/ox)
Plot for hydrophobicity, charge, predicted secondary structure, solvent accessability, transmembrane helices and disulfid bridges 
Codon usage
Organism:E. coliB. subtilisS. cerevisiaeA. thalianaP. patensMammals
Codon quality (CAI):good (0.79)good (0.71)acceptable (0.59)good (0.64)good (0.80)good (0.71)
Alignments (obtained from PredictProtein.org)
   There were no alignments for this protein in the data base. The BLAST search was initialized and should be ready in a few hours.
Predictions (obtained from PredictProtein.org)
   There were no predictions for this protein in the data base. The prediction was initialized and should be ready in a few hours.
The BioBrick-AutoAnnotator was created by TU-Munich 2013 iGEM team. For more information please see the documentation.
If you have any questions, comments or suggestions, please leave us a comment.


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BamHI site found at 1
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]


[edit]
Categories
Parameters
None