LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_484.5wLII_11346_133
Total number of 3D structures: 32
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 |
1b0n_A |
103 |
71 |
65 |
0.62 |
12.31 |
90.919 |
9.040 |
T P |
1adr_A |
76 |
71 |
67 |
1.62 |
14.93 |
88.998 |
3.904 |
T P |
3f52_E |
78 |
71 |
67 |
1.56 |
8.96 |
88.158 |
4.028 |
T P |
2b5a_A |
77 |
71 |
66 |
1.67 |
9.09 |
87.139 |
3.730 |
T P |
1y9q_A |
178 |
71 |
64 |
1.52 |
14.06 |
86.963 |
3.959 |
T P |
1y7y_A |
69 |
71 |
63 |
1.38 |
9.52 |
85.613 |
4.264 |
T P |
2r1j_L |
66 |
71 |
64 |
1.40 |
14.06 |
85.557 |
4.269 |
T P |
2bnm_A |
194 |
71 |
65 |
1.73 |
9.23 |
85.125 |
3.553 |
T P |
1r69_A |
63 |
71 |
63 |
1.44 |
7.94 |
84.334 |
4.091 |
T P |
2cro_A |
65 |
71 |
63 |
1.59 |
9.52 |
83.840 |
3.722 |
T P |
1r63_A |
63 |
71 |
62 |
1.60 |
8.06 |
82.944 |
3.650 |
T P |
3clc_B |
77 |
71 |
61 |
1.63 |
8.20 |
82.456 |
3.530 |
T P |
1sq8_A |
64 |
71 |
63 |
1.67 |
11.11 |
82.018 |
3.551 |
T P |
2qfc_A |
284 |
71 |
63 |
1.66 |
15.87 |
81.789 |
3.584 |
T P |
1x57_A |
91 |
71 |
59 |
1.40 |
5.08 |
81.573 |
3.921 |
T P |
1lli_B |
92 |
71 |
63 |
1.84 |
6.35 |
81.406 |
3.249 |
T P |
1utx_A |
66 |
71 |
61 |
1.52 |
9.84 |
81.289 |
3.758 |
T P |
2r63_A |
63 |
71 |
62 |
1.68 |
8.06 |
81.252 |
3.491 |
T P |
2ewt_A |
71 |
71 |
64 |
2.02 |
12.50 |
80.190 |
3.024 |
T P |
3eus_A |
85 |
71 |
61 |
1.72 |
6.56 |
79.741 |
3.350 |
T P |
3bs3_A |
62 |
71 |
62 |
1.78 |
4.84 |
79.293 |
3.298 |
T P |
2jvl_A |
107 |
71 |
60 |
1.60 |
13.33 |
78.367 |
3.520 |
T P |
2ef8_A |
84 |
71 |
61 |
1.86 |
8.20 |
77.846 |
3.107 |
T P |
3dnv_B |
71 |
71 |
59 |
1.83 |
8.47 |
75.587 |
3.051 |
T P |
2k9q_A |
77 |
71 |
41 |
2.46 |
9.76 |
45.785 |
1.602 |
T P |
1z26_A |
716 |
71 |
40 |
2.80 |
2.50 |
38.618 |
1.381 |
T P |
1u04_A |
713 |
71 |
43 |
2.68 |
4.65 |
38.543 |
1.544 |
T P |
2p5t_E |
95 |
71 |
38 |
2.39 |
10.53 |
37.964 |
1.524 |
T P |
2dpm_A |
258 |
71 |
30 |
2.63 |
0.00 |
28.792 |
1.098 |
T P |
2ras_B |
204 |
71 |
26 |
2.24 |
7.69 |
26.873 |
1.111 |
T P |
1gg1_B |
343 |
71 |
24 |
3.01 |
8.33 |
24.602 |
0.771 |
T P |
3g7u_A |
348 |
71 |
17 |
2.57 |
11.76 |
18.887 |
0.638 |
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]