Structural analysis of 2qgn: Difference between revisions
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A total of 527 hits were found from DALI search, thus only the first 20 hits that may be of significance were shown on the figure. | A total of 527 hits were found from DALI search, thus only the first 20 hits that may be of significance were shown on the figure. Based on the outcome of DALI, PDB files of each structurally similar protein was obtained from PDB. These were each aligned with 2qgn, to compare the structural similiarity. Results are as below : | ||
[[Image:2qgn.png|framed|none]] | [[Image:2qgn.png|framed|none]] | ||
[[Image:2qgn2.png|framed|none]] | [[Image:2qgn2.png|framed|none]] | ||
[[Image:2qgn3.png|framed|none]] | [[Image:2qgn3.png|framed|none]] | ||
Revision as of 11:27, 30 May 2008
Protein Sequence in FASTA format
>gi|152149497|pdb|2QGN|A Chain A, Crystal Structure Of Trna Isopentenylpyrophosphate Transferase (Bh2366) From Bacillus Halodurans, Northeast Structural Genomics Consortium Target Bhr41. XKEKLVAIVGPTAVGKTKTSVXLAKRLNGEVISGDSXQVYRGXDIGTAKITAEEXDGVPHHLIDIKDPSE SFSVADFQDLATPLITEIHERGRLPFLVGGTGLYVNAVIHQFNLGDIRADEDYRHELEAFVNSYGVQALH DKLSKIDPKAAAAIHPNNYRRVIRALEIIKLTGKTVTEQARHEEETPSPYNLVXIGLTXERDVLYDRINR RVDQXVEEGLIDEAKKLYDRGIRDCQSVQAIGYKEXYDYLDGNVTLEEAIDTLKRNSRRYAKRQLTWFRN KANVTWFDXTDVDFDKKIXEIHNFIAGKLEEKSKLEHHHHHH
Structure of Protein
Structure of TRNA isopentenyl transferase 1 showing helix, sheet and loop. Image constructed from PyMOL.
Structural Analysis
Analysis of the secondary structure acquired from Protein Data Bank showed results as displayed below :
Surface Properties of 2qgn
Surface property displayed by 2qgn. Red colour indicates negatively charged regions, while blue colour indicates positively charged regions.
Ligand Binding Sites and Surface Clefts
Structural Alignment
Dali Output
PDB entry code for 2qgn was loaded onto DALI to search for structurally similar neighbours. Displayed below are the results from DALI search :-
A total of 527 hits were found from DALI search, thus only the first 20 hits that may be of significance were shown on the figure. Based on the outcome of DALI, PDB files of each structurally similar protein was obtained from PDB. These were each aligned with 2qgn, to compare the structural similiarity. Results are as below :
