LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_259.5wLII_11212_127
Total number of 3D structures: 13
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 |
2g0q_A |
149 |
130 |
118 |
0.78 |
18.64 |
89.605 |
13.365 |
T P |
2pn7_A |
169 |
130 |
100 |
1.91 |
11.00 |
70.105 |
4.984 |
T P |
2rbh_A |
169 |
130 |
99 |
1.82 |
11.11 |
70.078 |
5.144 |
T P |
2i5t_A |
169 |
130 |
98 |
1.73 |
11.22 |
69.723 |
5.359 |
T P |
2jqv_A |
165 |
130 |
104 |
2.05 |
15.38 |
69.448 |
4.839 |
T P |
3cry_A |
169 |
130 |
97 |
1.67 |
11.34 |
69.383 |
5.485 |
T P |
2qik_A |
269 |
130 |
97 |
1.98 |
13.40 |
65.283 |
4.653 |
T P |
1vkb_A |
147 |
130 |
98 |
2.03 |
16.33 |
58.183 |
4.606 |
T P |
1xhs_A |
113 |
130 |
89 |
2.07 |
11.24 |
55.273 |
4.096 |
T P |
1wyg_A |
1297 |
130 |
40 |
2.70 |
2.50 |
21.532 |
1.428 |
T P |
2w3s_B |
760 |
130 |
38 |
2.90 |
7.89 |
19.713 |
1.267 |
T P |
2e3t_A |
1291 |
130 |
38 |
2.77 |
5.26 |
19.131 |
1.324 |
T P |
2w55_B |
760 |
130 |
36 |
2.62 |
2.78 |
18.052 |
1.324 |
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]