Structural analysis of 2qgn: Difference between revisions
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[[Image:2qgnA.png|framed|'''Figure 1'''<BR>Structure of TRNA isopentenyl transferase 1 showing helix, sheet and loop. Image constructed from PyMOL.|none]]<BR> | [[Image:2qgnA.png|framed|'''Figure 1'''<BR>Structure of TRNA isopentenyl transferase 1 showing helix, sheet and loop. Image constructed from PyMOL.|none]]<BR> | ||
== | ==Secondary Structure== | ||
Analysis of the secondary structure acquired from Protein Data Bank showed results as displayed below : | Analysis of the secondary structure acquired from Protein Data Bank showed results as displayed below : | ||
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==Surface Properties of 2qgn== | ==Surface Properties of 2qgn== | ||
[[Image:surface prop.png|framed|'''Figure 2'''<BR>Surface property displayed by 2qgn. Red colour indicates negatively charged regions, while blue colour indicates positively charged regions.|none]]<BR> | [[Image:surface prop.png|framed|'''Figure 2'''<BR>Surface property displayed by 2qgn. Red colour indicates negatively charged regions, while blue colour indicates positively charged regions.|none]]<BR> | ||
==Domains== | |||
There are two main domains regarding 2qgnA. | |||
[[Image:domain pic.jpg|framed|'''Figure 4''' <BR>Two main domains exhibited by tRNA isopentenyl transferase(2qgnA). Blue regions denote one domain while Red regions underlying another domain.|none]]<BR> | |||
[[Image:domain--2.jpg]] | |||
[[Image:domain--1.jpg]] | |||
==Ligand Binding Sites and Surface Clefts== | ==Ligand Binding Sites and Surface Clefts== |
Revision as of 12:54, 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
Secondary Structure
Analysis of the secondary structure acquired from Protein Data Bank showed results as displayed below :
Surface Properties of 2qgn
Domains
There are two main domains regarding 2qgnA.
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 superimposed with 2qgn on PyMOL, to compare the structural similiarity. Results are as below :