LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_388.5wLII_11277_106
Total number of 3D structures: 11
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 |
1byr_A |
152 |
172 |
152 |
0.36 |
26.32 |
88.145 |
33.030 |
T P |
1v0w_A |
496 |
172 |
140 |
1.71 |
18.57 |
74.653 |
7.728 |
T P |
2ze4_A |
501 |
172 |
140 |
1.79 |
17.14 |
74.141 |
7.397 |
T P |
1f0i_A |
496 |
172 |
139 |
1.72 |
18.71 |
73.559 |
7.648 |
T P |
2o8r_A |
648 |
172 |
130 |
1.82 |
12.31 |
65.349 |
6.765 |
T P |
2c1l_A |
358 |
172 |
138 |
1.97 |
10.87 |
64.721 |
6.655 |
T P |
2ze9_A |
504 |
172 |
139 |
1.74 |
17.27 |
64.198 |
7.567 |
T P |
1xdp_A |
687 |
172 |
134 |
2.08 |
18.66 |
58.245 |
6.139 |
T P |
2f5t_X |
233 |
172 |
120 |
2.17 |
13.33 |
53.546 |
5.278 |
T P |
2b3y_A |
888 |
172 |
70 |
2.04 |
4.29 |
31.771 |
3.273 |
T P |
1p1m_A |
404 |
172 |
62 |
2.57 |
8.06 |
25.872 |
2.325 |
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]