LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_378.5wLII_11277_68
Total number of 3D structures: 31
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 |
1lml_A |
465 |
131 |
126 |
1.59 |
18.25 |
90.522 |
7.454 |
T P |
1c5k_A |
397 |
131 |
48 |
2.43 |
8.33 |
24.166 |
1.895 |
T P |
2w8b_B |
409 |
131 |
42 |
2.61 |
2.38 |
21.259 |
1.550 |
T P |
1g4x_A |
396 |
131 |
43 |
2.78 |
11.63 |
20.895 |
1.493 |
T P |
2aat_A |
396 |
131 |
39 |
2.78 |
10.26 |
20.306 |
1.352 |
T P |
1qis_A |
396 |
131 |
37 |
2.47 |
5.41 |
19.810 |
1.440 |
T P |
2d66_A |
396 |
131 |
35 |
2.57 |
2.86 |
19.710 |
1.311 |
T P |
1qit_A |
396 |
131 |
36 |
2.48 |
5.56 |
19.699 |
1.398 |
T P |
2w8b_A |
409 |
131 |
36 |
2.56 |
5.56 |
19.514 |
1.352 |
T P |
2hqs_A |
412 |
131 |
39 |
2.60 |
2.56 |
19.417 |
1.447 |
T P |
1arh_A |
396 |
131 |
37 |
2.69 |
8.11 |
19.406 |
1.328 |
T P |
1aia_A |
396 |
131 |
37 |
2.47 |
2.70 |
19.288 |
1.441 |
T P |
1spa_A |
396 |
131 |
37 |
2.60 |
2.70 |
19.177 |
1.369 |
T P |
1ari_A |
396 |
131 |
38 |
2.70 |
7.89 |
19.161 |
1.356 |
T P |
1bqd_A |
395 |
131 |
36 |
2.62 |
0.00 |
19.117 |
1.324 |
T P |
1crz_A |
403 |
131 |
40 |
2.70 |
2.50 |
18.912 |
1.430 |
T P |
1ars_A |
396 |
131 |
37 |
2.60 |
2.70 |
18.901 |
1.368 |
T P |
1ix6_A |
396 |
131 |
37 |
2.69 |
13.51 |
18.856 |
1.327 |
T P |
1ahx_A |
396 |
131 |
38 |
2.64 |
2.63 |
18.846 |
1.386 |
T P |
1ix8_A |
396 |
131 |
35 |
2.59 |
8.57 |
18.737 |
1.300 |
T P |
1tog_A |
395 |
131 |
36 |
2.68 |
5.56 |
18.557 |
1.293 |
T P |
1bqa_A |
395 |
131 |
36 |
2.65 |
5.56 |
18.057 |
1.307 |
T P |
5eaa_A |
396 |
131 |
34 |
2.69 |
2.94 |
17.946 |
1.219 |
T P |
2d61_A |
396 |
131 |
35 |
2.68 |
8.57 |
17.876 |
1.261 |
T P |
1g4v_A |
396 |
131 |
37 |
2.82 |
2.70 |
17.754 |
1.269 |
T P |
1tok_A |
395 |
131 |
34 |
2.81 |
5.88 |
17.692 |
1.167 |
T P |
1asf_A |
396 |
131 |
32 |
2.84 |
0.00 |
17.617 |
1.089 |
T P |
1toi_A |
395 |
131 |
35 |
2.79 |
5.71 |
17.604 |
1.210 |
T P |
2q7w_A |
378 |
131 |
30 |
2.41 |
10.00 |
17.221 |
1.196 |
T P |
1qir_A |
396 |
131 |
32 |
2.58 |
3.12 |
16.983 |
1.195 |
T P |
1aam_A |
396 |
131 |
31 |
2.57 |
3.23 |
16.097 |
1.159 |
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]