LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_435.5wLII_11277_263
Total number of 3D structures: 10
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 |
3c12_A |
138 |
144 |
137 |
0.43 |
15.33 |
95.032 |
25.646 |
T P |
3eif_A |
936 |
144 |
85 |
2.49 |
15.29 |
41.919 |
3.282 |
T P |
1xf1_A |
926 |
144 |
81 |
2.45 |
14.81 |
39.277 |
3.176 |
T P |
1f1s_A |
814 |
144 |
56 |
2.70 |
7.14 |
25.234 |
2.000 |
T P |
1zi0_B |
296 |
144 |
46 |
2.71 |
13.04 |
21.726 |
1.637 |
T P |
2odl_A |
372 |
144 |
42 |
2.17 |
4.76 |
20.922 |
1.848 |
T P |
3sdp_A |
186 |
144 |
41 |
2.65 |
0.00 |
19.995 |
1.491 |
T P |
1xuq_A |
200 |
144 |
36 |
2.31 |
2.78 |
18.786 |
1.492 |
T P |
3eck_A |
359 |
144 |
36 |
2.67 |
0.00 |
16.708 |
1.299 |
T P |
3bza_A |
359 |
144 |
32 |
2.75 |
9.38 |
15.095 |
1.123 |
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]