Protein structure prediction of E. Coli Genome by TASSER Method
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In this webpage, we present the result of protein structure predictions by TASSER
(Threading ASSEmbly Refinement) algorithm on 1360 ORFs in E. Coli
genome with length below 201 residues. Please refer to the following paper for detail:
Y. Zhang, J. Skolnick, Automated structure prediction of weakly homologous
proteins on a genomic scale. (Proc. Natl. Acad. Sci. USA 2004 101: 7594-7599). (download PDF file)
Summary of folding results:
- ID --- PDB code of the proteins;
- Sequence --- Sequence files of target proteins;
- Class --- Secondary structure classification according to the
prediction from PSIPRED;
- a --- alpha-protein;
- b --- beta-protein;
- ab --- alpha/beta-protein;
- l --- protein with little secondary structures;
- Length --- Number of residues of the target proteins;
- Template --- Template files (in PDB format) by the threading program
PROSPECTOR_3;
- Z-score --- The highest Z-score in PROSPECTOR_3 hits;
- Cover_ali --- Coverage of threading alignment for the highest Z-score template;
- Models --- Top five models generated by clustering the trajectories by the
SPICKER
algorithm;
- model[1-5].pdb: Cluster centroid;
- close[1-5].pdb: Structures closest to the cluster centroid;
- Confidence --- Probability of the top five clusters having an RMSD to
native below 6.5 Angstrom. This confidence was obtained by the comparison of
C-score with PDB
benchmark results, where C-score is a combination of the
Z-score of threading templates and the structure density in the Monte Carlo
trajectories.
[Table I]
[Table II]
[Table III]
[Table IV]
[Table V]