LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_223.5wLII_11195_2
Total number of 3D structures: 16
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 |
2vrt_D |
487 |
144 |
106 |
1.89 |
14.15 |
65.666 |
5.338 |
T P |
2vmk_B |
495 |
144 |
103 |
1.85 |
14.56 |
65.539 |
5.279 |
T P |
2bx2_L |
500 |
144 |
76 |
1.97 |
11.84 |
45.687 |
3.667 |
T P |
1h99_A |
220 |
144 |
52 |
2.44 |
1.92 |
27.125 |
2.051 |
T P |
2c2a_A |
240 |
144 |
42 |
2.39 |
4.76 |
23.681 |
1.690 |
T P |
1w63_A |
589 |
144 |
44 |
2.33 |
11.36 |
22.998 |
1.808 |
T P |
2nuj_A |
159 |
144 |
42 |
2.21 |
4.76 |
22.601 |
1.819 |
T P |
2ali_A |
130 |
144 |
38 |
2.22 |
5.26 |
22.575 |
1.640 |
T P |
2o6t_A |
146 |
144 |
39 |
2.22 |
5.13 |
22.412 |
1.678 |
T P |
2fuj_A |
118 |
144 |
39 |
2.33 |
5.13 |
22.224 |
1.606 |
T P |
2o5u_A |
144 |
144 |
38 |
2.13 |
5.26 |
21.976 |
1.708 |
T P |
3d36_B |
221 |
144 |
44 |
2.42 |
4.55 |
21.972 |
1.749 |
T P |
1joy_A |
67 |
144 |
39 |
2.18 |
0.00 |
21.307 |
1.710 |
T P |
2av9_A |
142 |
144 |
35 |
2.31 |
2.86 |
19.160 |
1.455 |
T P |
2own_B |
258 |
144 |
38 |
2.50 |
10.53 |
18.426 |
1.460 |
T P |
2ess_A |
243 |
144 |
30 |
2.67 |
6.67 |
14.567 |
1.084 |
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]