LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_319.5wLII_11247_15
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 |
2hgs_A |
472 |
441 |
402 |
1.05 |
14.68 |
88.098 |
34.817 |
T P |
1m0w_A |
481 |
441 |
376 |
1.83 |
11.44 |
76.998 |
19.459 |
T P |
2io8_A |
598 |
441 |
244 |
2.53 |
7.79 |
33.103 |
9.267 |
T P |
2vpm_A |
600 |
441 |
221 |
2.59 |
11.76 |
31.411 |
8.229 |
T P |
2vob_A |
598 |
441 |
214 |
2.52 |
10.75 |
30.163 |
8.160 |
T P |
1gsa_A |
314 |
441 |
141 |
2.39 |
12.77 |
20.655 |
5.659 |
T P |
1glv_A |
299 |
441 |
130 |
2.60 |
13.08 |
18.226 |
4.806 |
T P |
1wqa_A |
455 |
441 |
79 |
2.59 |
5.06 |
11.522 |
2.938 |
T P |
2qbu_A |
228 |
441 |
78 |
2.68 |
5.13 |
11.336 |
2.803 |
T P |
1k94_A |
165 |
441 |
53 |
2.51 |
3.77 |
8.140 |
2.032 |
T P |
1f4q_B |
165 |
441 |
49 |
2.63 |
4.08 |
7.316 |
1.794 |
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]