LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_340.5wLII_11276_121
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 |
1oxw_C |
362 |
156 |
153 |
1.39 |
17.65 |
93.351 |
10.263 |
T P |
1cjy_A |
633 |
156 |
106 |
2.28 |
10.38 |
50.001 |
4.461 |
T P |
2jfk_D |
409 |
156 |
74 |
2.52 |
12.16 |
31.715 |
2.826 |
T P |
2jfd_A |
404 |
156 |
73 |
2.46 |
13.70 |
31.499 |
2.853 |
T P |
1mo2_A |
251 |
156 |
51 |
2.43 |
15.69 |
22.469 |
2.019 |
T P |
1kez_A |
267 |
156 |
48 |
2.77 |
4.17 |
20.519 |
1.673 |
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]