LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_31.5wLII_10799_14
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 |
1jx7_A |
117 |
120 |
113 |
0.51 |
21.24 |
93.779 |
18.547 |
T P |
2d1p_A |
130 |
120 |
113 |
1.59 |
16.81 |
87.880 |
6.670 |
T P |
2hy5_A |
130 |
120 |
113 |
1.44 |
19.47 |
87.701 |
7.359 |
T P |
2hy5_B |
132 |
120 |
111 |
1.69 |
16.22 |
83.914 |
6.189 |
T P |
2d1p_B |
119 |
120 |
112 |
1.90 |
15.18 |
82.811 |
5.596 |
T P |
1l1s_A |
111 |
120 |
106 |
1.65 |
12.26 |
81.758 |
6.057 |
T P |
2pd2_A |
108 |
120 |
103 |
1.62 |
10.68 |
79.243 |
6.000 |
T P |
2hy5_C |
101 |
120 |
100 |
1.61 |
12.00 |
76.221 |
5.837 |
T P |
2fb6_A |
116 |
120 |
102 |
1.84 |
13.73 |
75.245 |
5.255 |
T P |
2d1p_C |
95 |
120 |
93 |
1.67 |
7.53 |
71.162 |
5.249 |
T P |
2qs7_A |
138 |
120 |
106 |
2.11 |
23.58 |
64.540 |
4.794 |
T P |
2gmh_A |
581 |
120 |
66 |
1.65 |
12.12 |
43.835 |
3.775 |
T P |
2a0n_A |
251 |
120 |
73 |
2.47 |
9.59 |
40.355 |
2.845 |
T P |
1vbr_A |
324 |
120 |
69 |
2.71 |
7.25 |
40.093 |
2.453 |
T P |
1rj9_A |
277 |
120 |
56 |
2.71 |
10.71 |
31.610 |
1.990 |
T P |
2qp2_A |
498 |
120 |
30 |
2.57 |
6.67 |
17.271 |
1.122 |
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]