Difference between revisions of "Hypothetical protein Results"

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[[Image:hypotreexx21.jpg]]
 
[[Image:hypotreexx21.jpg]]
 
'''Figure 4:''' Curved phylogenetic tree with bootstrap values, obtained using MEGA 4.0 [2]
 
'''Figure 4:''' Curved phylogenetic tree with bootstrap values, obtained using MEGA 4.0 [2]
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'''Radiation tree:'''
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[[Image:radiationtreexx22.jpg]]
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'''Figure 5:''' Phylogenetic tree representing radiation of Ribose/Fucose transporter, Obtained using MEGA 4.0 [2] and manually edited in Microsoft Power Point 2007.
  
 
=='''Structure'''==
 
=='''Structure'''==

Revision as of 04:40, 15 June 2009

Abstract | Introduction | Method | Results | Discussion | Conclusion | References

Evolution

Sequences:

Sequences (FASTA format) gathered for MSA (including query), available via the following link: [1]


Multiple Sequence Alignment: Hypotheticalmsa1xx.jpg Figure 3: Multiple sequence alignment generated using Clustalx 1.83 [1].


Original Curved Bootstrapped Tree: Hypotreexx21.jpg Figure 4: Curved phylogenetic tree with bootstrap values, obtained using MEGA 4.0 [2]


Radiation tree: Radiationtreexx22.jpg Figure 5: Phylogenetic tree representing radiation of Ribose/Fucose transporter, Obtained using MEGA 4.0 [2] and manually edited in Microsoft Power Point 2007.

Structure

Function

Blasthp.jpg

The results from the blast search showed a conserved FucU/RbsD domain.


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Interpro Scan result

Interpro1.gif

This image shows the results of a InterProScan. The InterProScan search identifies sequence motifs from several databases.These results show that the target protein belongs to the RbsD/FucU superfamily (Purple and red lines) The gray line shows an possible binding histadine site.


PDB Sequence Match

PDB1.jpg

This PDB scan compares structure alignment. The highest structural match with our sequence is shown to be involved in an d-ribose high affinity transport system. This supports the theory that our hypothetical protein is involved in the ABC transport system of ribose in prokaryote cells.

Residue Conservation Analysis

Pymol.png

In this anaysis the residues are highlighted in different colours representing the levels of conservity. The red residues are the most conserved followed by pink, orange ect.
The yellow residue is highly conserved. acourding to certain literature it is very functionally important in the related ribose_fucu superfamily.


Fold Match

FoldMatch.jpg

This anaysis compares the similiar folds between structures. This again shows that the same d-ribose high affinity transport from the previous PDB analysis has the highest similarity, thus again reinforces the close relationship of our protein with ribose transport systems in prokaryote bacteria. This suggests similar function.