Pyridoxal Phosphatase structure: Difference between revisions
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'''Importance of structural studies - the relationship between Evolution, Structure and Function.''' | ==='''Importance of structural studies - the relationship between Evolution, Structure and Function.'''=== | ||
*Evolution provides information pertaining to families of structurally related proteins, BUT sequence identities may be low. | *Evolution provides information pertaining to families of structurally related proteins, BUT sequence identities may be low. | ||
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*Functions can be assigned based on structural studies. <BR> | *Functions can be assigned based on structural studies. <BR> | ||
'''(Some of the) Results obtained during this study''' | ==='''(Some of the) Results obtained during this study'''=== | ||
[[Image:2cftA Structure breakdown.jpg|left|thumb|500px|Courtesy (and edited) of Almo et al., 2007. Structure of 2cftA - Human Pyridoxal 5'-Phosphate Phosphatase with its substrate. As mentioned in the "Introduction" section, the core domain consists of beta sheets sandwiched by alpha helices. 2cftA is similar to 2cfsA, with the differences being the presence of a PLP ligand and the type of metal ions (2cfsA has magnesium ions, 2cftA has calcium ions). Notice the similarities between the structure of 2cftA and the PyMOL-generated image of 2cfsA.]] | [[Image:2cftA Structure breakdown.jpg|left|thumb|500px|Courtesy (and edited) of Almo et al., 2007. Structure of 2cftA - Human Pyridoxal 5'-Phosphate Phosphatase with its substrate. As mentioned in the "Introduction" section, the core domain consists of beta sheets sandwiched by alpha helices. 2cftA is similar to 2cfsA, with the differences being the presence of a PLP ligand and the type of metal ions (2cfsA has magnesium ions, 2cftA has calcium ions). Notice the similarities between the structure of 2cftA and the PyMOL-generated image of 2cfsA.]] | ||
[[Image:2cfsA_PyMOL.png|left|thumb|500px|The three-dimensional structure of 2cfsA, as generated by PyMOL<BR> | [[Image:2cfsA_PyMOL.png|left|thumb|500px|The three-dimensional structure of 2cfsA, as generated by PyMOL<BR> |
Revision as of 12:30, 9 June 2008
Importance of structural studies - the relationship between Evolution, Structure and Function.
- Evolution provides information pertaining to families of structurally related proteins, BUT sequence identities may be low.
- Structural studies help to identify unanticipated relationships in known structures.
- Functions can be assigned based on structural studies.
(Some of the) Results obtained during this study

DALI - 1st Run
Based on the results of the first run, how similar is 2oycA to 2cfsA? With the aid of PyMOL, 2oycA was super-imposed against 2cfsA...
2cfsA vs 2oycA
1. Secondary Structure
2. Topology Diagram
PROFUNC
Related Protein Sequences in the PDB (SAS)
Matches to existing PDB Structures
Secondary Structure Matching (SSM)


Dali - 2nd Run
"Inconsistencies" - flaw or strength?
The second DALI run does not affect the results as PROFUNC has already indicated 2cftA to be the most closely-related to 2cfsA. On the contrary, the results serve as a confirmation that 2cfsA is indeed a Pyridoxal Phosphatase and belongs to the same family as 2oycA and 2cftA - two proteins that have been studied to assist in the structural and functional prediction of 2cfsA.