LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_206.5wLII_11184_30
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 |
1v8g_A |
329 |
331 |
317 |
0.56 |
20.19 |
95.023 |
48.054 |
T P |
2elc_A |
329 |
331 |
317 |
0.85 |
19.87 |
93.755 |
33.271 |
T P |
1k8e_D |
345 |
331 |
313 |
1.66 |
19.49 |
85.529 |
17.795 |
T P |
1vqu_A |
334 |
331 |
301 |
1.52 |
23.26 |
85.235 |
18.625 |
T P |
1khd_D |
329 |
331 |
310 |
1.79 |
18.06 |
83.536 |
16.445 |
T P |
1zvw_A |
346 |
331 |
303 |
1.74 |
22.11 |
83.286 |
16.433 |
T P |
2bpq_A |
344 |
331 |
300 |
1.86 |
22.33 |
76.464 |
15.270 |
T P |
1uou_A |
438 |
331 |
253 |
2.22 |
17.00 |
53.410 |
10.899 |
T P |
2tpt_A |
440 |
331 |
269 |
2.22 |
13.38 |
53.206 |
11.605 |
T P |
2j0f_A |
446 |
331 |
251 |
2.35 |
17.53 |
52.170 |
10.224 |
T P |
2dsj_A |
423 |
331 |
251 |
2.27 |
13.94 |
51.571 |
10.603 |
T P |
1brw_A |
433 |
331 |
254 |
2.30 |
12.99 |
51.177 |
10.602 |
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]