LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_358.5wLII_11277_5
Total number of 3D structures: 12
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 |
150 |
142 |
0.66 |
18.31 |
93.985 |
18.643 |
T P |
2ze9_A |
504 |
150 |
135 |
1.81 |
14.07 |
81.459 |
7.065 |
T P |
1v0w_A |
496 |
150 |
134 |
1.77 |
14.93 |
81.015 |
7.160 |
T P |
1f0i_A |
496 |
150 |
133 |
1.74 |
15.04 |
81.003 |
7.236 |
T P |
2ze4_A |
501 |
150 |
133 |
1.77 |
13.53 |
80.977 |
7.112 |
T P |
2c1l_A |
358 |
150 |
136 |
2.03 |
10.29 |
72.293 |
6.400 |
T P |
2o8r_A |
648 |
150 |
127 |
1.95 |
9.45 |
70.596 |
6.188 |
T P |
1xdp_A |
687 |
150 |
127 |
2.08 |
12.60 |
70.109 |
5.815 |
T P |
2f5t_X |
233 |
150 |
109 |
2.03 |
13.76 |
57.117 |
5.119 |
T P |
1qor_A |
326 |
150 |
65 |
2.48 |
10.77 |
30.105 |
2.521 |
T P |
2dzx_B |
245 |
150 |
65 |
2.78 |
6.15 |
27.731 |
2.259 |
T P |
3dlb_A |
637 |
150 |
36 |
2.07 |
13.89 |
19.054 |
1.661 |
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]