LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_437.5wLII_11277_265
Total number of 3D structures: 9
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 |
1lrv_A |
233 |
98 |
92 |
0.71 |
15.22 |
93.484 |
11.363 |
T P |
2yvy_A |
248 |
98 |
68 |
2.42 |
10.29 |
49.253 |
2.695 |
T P |
2yvz_A |
248 |
98 |
70 |
2.60 |
11.43 |
47.651 |
2.593 |
T P |
2yvx_A |
442 |
98 |
65 |
2.52 |
9.23 |
46.057 |
2.481 |
T P |
2oux_A |
257 |
98 |
66 |
2.56 |
13.64 |
44.922 |
2.478 |
T P |
1lkv_X |
213 |
98 |
54 |
2.47 |
11.11 |
37.054 |
2.100 |
T P |
2vf7_A |
815 |
98 |
48 |
2.61 |
6.25 |
33.444 |
1.772 |
T P |
2vjv_A |
125 |
98 |
38 |
2.72 |
13.16 |
25.576 |
1.348 |
T P |
2a6m_B |
150 |
98 |
33 |
2.67 |
15.15 |
23.635 |
1.192 |
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]