Coding
tctA_503aa

Part:BBa_K808002

Designed by: Valentina Herbring, Sebastian Palluk, Andreas Schmidt   Group: iGEM12_TU_Darmstadt   (2012-09-05)
Revision as of 17:13, 23 September 2012 by Vali (Talk | contribs)

tctA_503: large subunit A1 of the tripartite tricarboxylate transporter family

The large subunit A1 of the tripartite tricarboxylate transporter family (tctA_503, 52,98 kDa) was isolated from Comamonas testosteroni KF-1. The tripartite tricarboxylate transporter system consists of three different proteins: a periplasmatic solute binding receptor, a membrane protein with 12 putative transmembrane alpha-helical spanners (in this case tctA_503), and a small poorly conserved membrane proteine with four putative transmembrane alpha-helical spanner[1]..The strain was purchased from Leibniz Institute DMSZ-German Collection of Microorganism and Cell Cultures (DMSZ no. 14576). The original sequence contains a Pst1 recognition site. To eliminate this recognition site a directed-site mutagenic PCR was performed. (For more datails: link zu dem PCR protokoll und dem Labjournal, wo isolations PCR beschrieben wird) To characterized the structure of the tctA_503 bioinformatic tools like Protein Homology/anologY Recognition Engine V 2.0 (PHYRE2), I-TASSER servers, and TMHMM was used. The TMHMM predicted a transmembrane protein with 11 alpha-helical spanners (Fig. 1). The N-teminus is with a probability of 98 % in cytoplasmatic. The NCBI Protein BLAST results shows that the tctA_503 subunit A1 belongs to the tctA superfamily. PHYRE2 and I-Tasser server homology modelling did not give a significant result for the structure of the tctA_503 subunit A1.

Figure 1. TMHMM prediction of the tctA_503 subunit A1. It shows 11 alpha-helical spanners.

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 NgoMIV site found at 1467
    Illegal AgeI site found at 712
  • 1000
    COMPATIBLE WITH RFC[1000]


References

[1] Sasoh, M., E. Masai, et al. (2006). "Characterization of the terephthalate degradation genes of Comamonas sp. strain E6." Appl Environ Microbiol 72(3): 1825-1832.


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Categories
Parameters
n/atctA_503: large subunit A1 of the tripartite tricarboxylate transporter family