Composite

Part:BBa_K5036045

Designed by: Emad hamdy Matter   Group: iGEM24_AFCM-Egypt   (2024-09-21)
Revision as of 15:41, 25 September 2024 by Em100 (Talk | contribs) (→‎Software Characterization)


MCP-MMP9 Nanobody1

Part Description

Our engineered switch contains a nanobody that recognizes MMP9, an enzyme elevated in injured cells. This nanobody is linked to MCP protein, which is attached to MS2 from the other end because of its high affinity for MS2.

Usage

Our TID device contains MCP protein linked to specific sensors (nanobodies) that detect MMP9, a protein elevated within cells after tissue injury. TID switches from off state to on state when MMP9 is present in the cell cytoplasm. This triggers the circularization of YAP mRNA, which is essential for protein production

this figure illustrates the structure of MCP-MMP9 Nanobody which is attached to our switch .

Software Characterization

We measured the effect of the nanobodies on the MCP-MS2 binding stability, so we measured MCP-MS2 before and after binding to nanobody1

MCP-MS2

Alignment Plot

3D structure of MCP binded to MS2-Aptamers

this figure show That the alignment plot scores high diagonal intensity which indicates the similarity between our structures and the experimental one .

MS2-MCP-NB1

Alignment Plot

3D structure of MCP binded to MS2-Aptamers

this figure show That The alignment plot scores higher diagonal intensity than MCB-MS2 plot which indicates higher protein stability in the presence of NB1 .


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
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]


[edit]
Categories
Parameters
None