Difference between revisions of "Part:BBa K3512000"
| Line 10: | Line 10: | ||
Homology modelling was used to create the structure of sugarcane invertase using SwissModel. | Homology modelling was used to create the structure of sugarcane invertase using SwissModel. | ||
| − | [[Image:BBa_K3512000_Anti.png| | + | [[Image:BBa_K3512000_Anti.png|400px|thumb|center|]] |
<h3>Ramachandran Plot</h3> | <h3>Ramachandran Plot</h3> | ||
| Line 16: | Line 16: | ||
A Ramachandran plot is a way to visualize energetically favoured regions for backbone dihedral angles against amino acid residues in protein structure. | A Ramachandran plot is a way to visualize energetically favoured regions for backbone dihedral angles against amino acid residues in protein structure. | ||
| − | [[Image:BBa_K3512000_RP.png| | + | [[Image:BBa_K3512000_RP.png|400px|thumb|center|]] |
97.48% is Ramachandran Favoured. ALA120, PHE148 have C-Beta Deviations. | 97.48% is Ramachandran Favoured. ALA120, PHE148 have C-Beta Deviations. | ||
| Line 25: | Line 25: | ||
The model had a GMQE of 1.24 | The model had a GMQE of 1.24 | ||
| − | [[Image:BBa_K3512000_QE.png| | + | [[Image:BBa_K3512000_QE.png|400px|thumb|center|]] |
<h2>Invertase Anti-invertase Docking</h2> | <h2>Invertase Anti-invertase Docking</h2> | ||
| Line 31: | Line 31: | ||
The following image illustrates the docking of sugarcane invertase with sugarcane invertase inhibitor. The final energy of binding is -667.5J. ClusPro docking server was used to perform the protein-protein docking. | The following image illustrates the docking of sugarcane invertase with sugarcane invertase inhibitor. The final energy of binding is -667.5J. ClusPro docking server was used to perform the protein-protein docking. | ||
| − | [[Image:BBa_K3512000_IA.png| | + | [[Image:BBa_K3512000_IA.png|400px|thumb|center|]] |
<!-- Add more about the biology of this part here | <!-- Add more about the biology of this part here | ||
Revision as of 20:36, 21 October 2020
Sugarcane Invertase Inhibitor
This is the anti-invertase or invertase inhibitor from Sugarcane (Saccharum officinarum). It is part of the Fructose Regulated Anti-invertase Construct (BBa_K3512012).
In sugarcane, invertase enzymes play a key role in sucrose accumulation and are also involved in futile reactions where sucrose is continuously degraded during the pre- and post-harvest period, thereby reducing sugar yield and recovery. Invertase inhibitor (INVINH) proteins play a key role in post-translation regulation of plant invertases through which sucrose hydrolysis is controlled.
Homology Modelling
Homology modelling was used to create the structure of sugarcane invertase using SwissModel.
Ramachandran Plot
A Ramachandran plot is a way to visualize energetically favoured regions for backbone dihedral angles against amino acid residues in protein structure.
97.48% is Ramachandran Favoured. ALA120, PHE148 have C-Beta Deviations.
Quality Estimation
The comparison with Non-Redundant Set of PDB Structures helps us derive a quality estimate for our model via QMEAN4. The model had a GMQE of 1.24
Invertase Anti-invertase Docking
The following image illustrates the docking of sugarcane invertase with sugarcane invertase inhibitor. The final energy of binding is -667.5J. ClusPro docking server was used to perform the protein-protein docking.
Sequence and Features
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21INCOMPATIBLE WITH RFC[21]Illegal XhoI site found at 253
- 23COMPATIBLE WITH RFC[23]
- 25INCOMPATIBLE WITH RFC[25]Illegal NgoMIV site found at 91
- 1000COMPATIBLE WITH RFC[1000]