LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_115.5wLII_11077_4
Total number of 3D structures: 25
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 |
2fck_A |
174 |
91 |
91 |
0.72 |
19.78 |
99.099 |
11.067 |
T P |
1nsl_C |
180 |
91 |
89 |
1.65 |
10.11 |
89.059 |
5.074 |
T P |
1s7f_A |
181 |
91 |
89 |
1.72 |
7.87 |
88.876 |
4.886 |
T P |
1z9u_B |
176 |
91 |
89 |
1.92 |
7.87 |
86.158 |
4.402 |
T P |
1yre_B |
187 |
91 |
85 |
1.97 |
8.24 |
83.270 |
4.101 |
T P |
3fbu_A |
166 |
91 |
83 |
1.71 |
8.43 |
82.692 |
4.591 |
T P |
1i21_B |
157 |
91 |
86 |
1.98 |
8.14 |
82.270 |
4.126 |
T P |
1i12_D |
157 |
91 |
87 |
2.06 |
8.05 |
80.381 |
4.022 |
T P |
1i1d_D |
161 |
91 |
86 |
2.02 |
9.30 |
80.362 |
4.056 |
T P |
2zxv_A |
187 |
91 |
84 |
1.97 |
13.10 |
80.179 |
4.050 |
T P |
3eg7_B |
175 |
91 |
81 |
1.90 |
9.88 |
79.594 |
4.042 |
T P |
2z0z_A |
194 |
91 |
79 |
1.91 |
15.19 |
76.554 |
3.940 |
T P |
2z10_A |
187 |
91 |
75 |
1.55 |
13.33 |
76.521 |
4.548 |
T P |
2fsr_A |
171 |
91 |
74 |
1.76 |
8.11 |
75.223 |
3.983 |
T P |
2vi7_C |
165 |
91 |
81 |
2.03 |
8.64 |
72.969 |
3.804 |
T P |
1yr0_A |
163 |
91 |
80 |
1.96 |
5.00 |
72.226 |
3.889 |
T P |
2i79_A |
171 |
91 |
79 |
2.12 |
12.66 |
70.524 |
3.562 |
T P |
2ge3_A |
164 |
91 |
76 |
2.06 |
9.21 |
69.993 |
3.518 |
T P |
2fl4_A |
147 |
91 |
77 |
2.25 |
7.79 |
61.447 |
3.274 |
T P |
2vr4_B |
841 |
91 |
50 |
2.45 |
2.00 |
40.318 |
1.959 |
T P |
2je8_B |
841 |
91 |
50 |
2.49 |
4.00 |
39.698 |
1.927 |
T P |
2vqu_B |
840 |
91 |
48 |
2.46 |
2.08 |
39.283 |
1.876 |
T P |
2p3k_A |
161 |
91 |
39 |
2.36 |
5.13 |
32.326 |
1.584 |
T P |
1kqr_A |
160 |
91 |
41 |
2.65 |
0.00 |
30.797 |
1.490 |
T P |
2p3j_A |
161 |
91 |
40 |
2.71 |
5.00 |
29.377 |
1.422 |
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]