LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_507.5wLII_11364_48
Total number of 3D structures: 26
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 |
3e9u_A |
162 |
160 |
151 |
0.89 |
22.52 |
93.130 |
15.192 |
T P |
2dpk_A |
124 |
160 |
112 |
1.64 |
16.07 |
66.149 |
6.428 |
T P |
2fwu_A |
157 |
160 |
112 |
1.68 |
16.07 |
65.408 |
6.288 |
T P |
2fws_A |
139 |
160 |
113 |
2.11 |
15.04 |
57.123 |
5.109 |
T P |
1yio_A |
198 |
160 |
50 |
2.50 |
4.00 |
21.267 |
1.921 |
T P |
3clo_A |
258 |
160 |
48 |
2.53 |
10.42 |
21.208 |
1.823 |
T P |
1y9q_A |
178 |
160 |
48 |
2.39 |
2.08 |
21.021 |
1.927 |
T P |
2h27_A |
71 |
160 |
42 |
2.38 |
7.14 |
19.333 |
1.696 |
T P |
1rp3_A |
235 |
160 |
43 |
2.69 |
11.63 |
17.476 |
1.539 |
T P |
2pok_A |
458 |
160 |
40 |
2.59 |
2.50 |
17.235 |
1.487 |
T P |
1xsv_A |
106 |
160 |
43 |
2.95 |
9.30 |
17.004 |
1.412 |
T P |
2o8x_A |
61 |
160 |
34 |
2.45 |
2.94 |
16.750 |
1.335 |
T P |
2rnj_A |
67 |
160 |
32 |
2.47 |
6.25 |
15.838 |
1.246 |
T P |
3c3w_A |
211 |
160 |
39 |
2.85 |
5.13 |
15.293 |
1.323 |
T P |
1s7o_C |
108 |
160 |
37 |
2.71 |
13.51 |
15.212 |
1.316 |
T P |
1or7_A |
181 |
160 |
34 |
2.70 |
11.76 |
14.951 |
1.213 |
T P |
1a04_A |
205 |
160 |
32 |
2.39 |
15.62 |
14.631 |
1.286 |
T P |
2b5a_A |
77 |
160 |
34 |
2.66 |
17.65 |
14.013 |
1.232 |
T P |
1y7y_A |
69 |
160 |
34 |
2.74 |
0.00 |
13.927 |
1.199 |
T P |
3b7h_A |
76 |
160 |
31 |
2.79 |
9.68 |
12.812 |
1.071 |
T P |
3bs3_A |
62 |
160 |
27 |
2.36 |
3.70 |
12.334 |
1.099 |
T P |
3c57_A |
51 |
160 |
30 |
2.80 |
13.33 |
12.197 |
1.035 |
T P |
2q1z_A |
176 |
160 |
27 |
2.67 |
7.41 |
11.174 |
0.975 |
T P |
1x3u_A |
79 |
160 |
25 |
2.58 |
8.00 |
10.876 |
0.932 |
T P |
1fse_B |
70 |
160 |
25 |
2.93 |
8.00 |
10.393 |
0.824 |
T P |
2z2s_C |
172 |
160 |
18 |
2.89 |
5.56 |
7.485 |
0.601 |
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]