LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_103.5wLII_11068_85
Total number of 3D structures: 6
LGA calculations using distance cutoff DIST: 4.0 A
Residues superimposed below 2.00 A: GREEN
Residues superimposed below 4.00 A: YELLOW
Residues superimposed below 6.00 A: ORANGE
Residues superimposed below 8.00 A: BROWN
Residues superimposed above 8.00 A or not aligned: RED
Terminal residues not aligned: GREY
Structure Deviation Summary
Calculations based on one final LGA superposition
(Bar representation of 3D plots, TEXT)
Structures ordered by LGA_S - score
Structure |
NS |
NT |
N(dist=4.0) |
RMSD(N) |
Seq_ID(N) |
LGA_S |
LGA_Q |
PLOTS |
2qdz_A |
516 |
396 |
348 |
1.36 |
11.49 |
83.771 |
23.846 |
T P |
3efc_A |
327 |
396 |
72 |
2.78 |
8.33 |
11.457 |
2.501 |
T P |
3gpd_R |
334 |
396 |
56 |
2.69 |
12.50 |
9.638 |
2.010 |
T P |
2uur_A |
210 |
396 |
49 |
2.78 |
6.12 |
8.569 |
1.702 |
T P |
2qdf_A |
318 |
396 |
53 |
2.79 |
9.43 |
8.415 |
1.835 |
T P |
2v9h_A |
154 |
396 |
50 |
2.77 |
6.00 |
7.935 |
1.744 |
T P |
NS : Total number of residues in Structure (rotated structure)
NT : Total number of residues in TARGET (frame of reference)
N : Total number of residues superimposed under 4.0 Angstrom distance cutoff
RMSD : RMS deviation calculated on all N residues superimposed under 4.0 Angstrom distance cutoff
Seq_Id : Sequence Identity. Percent of identical residues from the total of N aligned.
LGA_S : Structure similarity score calculated by internal LGA procedure (see LGA paper for details)
LGA_Q : Score (how tight is the superposition) calculated by the formula: Q = 0.1*N/(0.1+RMSD)
PLOTS : T - Flat text file (output from LGA program, rotated structure)
PLOTS : P - Plot of superimposed structures (3D plot colored as bars)
Citing LGA:
Zemla A., "LGA - a Method for Finding 3D Similarities in Protein Structures",
Nucleic Acids Research, 2003, Vol. 31, No. 13, pp. 3370-3374.
[MEDLINE]