LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_224.5wLII_11195_7
Total number of 3D structures: 23
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 |
2awn_B |
374 |
235 |
195 |
1.41 |
14.36 |
79.252 |
12.890 |
T P |
1q1b_A |
367 |
235 |
194 |
1.60 |
14.43 |
77.014 |
11.394 |
T P |
2r6g_B |
372 |
235 |
193 |
1.88 |
14.51 |
72.887 |
9.732 |
T P |
1vci_A |
353 |
235 |
174 |
2.03 |
13.22 |
60.438 |
8.178 |
T P |
1b0u_A |
258 |
235 |
181 |
2.06 |
15.47 |
58.384 |
8.388 |
T P |
1oxx_K |
352 |
235 |
180 |
2.14 |
16.67 |
58.358 |
8.028 |
T P |
1oxs_C |
352 |
235 |
180 |
2.14 |
16.11 |
58.111 |
8.025 |
T P |
2it1_A |
362 |
235 |
178 |
2.08 |
13.48 |
57.543 |
8.171 |
T P |
1v43_A |
353 |
235 |
177 |
2.05 |
14.69 |
57.333 |
8.219 |
T P |
3d31_A |
348 |
235 |
179 |
2.13 |
12.29 |
56.987 |
8.023 |
T P |
2olj_A |
242 |
235 |
180 |
2.15 |
12.78 |
56.877 |
7.999 |
T P |
2yyz_A |
358 |
235 |
174 |
2.10 |
13.79 |
56.768 |
7.918 |
T P |
3dhw_C |
343 |
235 |
179 |
2.24 |
10.61 |
55.359 |
7.656 |
T P |
1z47_A |
345 |
235 |
180 |
2.25 |
16.67 |
53.905 |
7.663 |
T P |
2d62_A |
375 |
235 |
173 |
2.30 |
11.56 |
52.447 |
7.213 |
T P |
2onk_A |
240 |
235 |
176 |
2.23 |
11.36 |
52.392 |
7.555 |
T P |
3c41_J |
242 |
235 |
173 |
2.24 |
12.14 |
52.327 |
7.378 |
T P |
1f3o_A |
232 |
235 |
161 |
2.15 |
11.18 |
50.565 |
7.143 |
T P |
1l2t_B |
232 |
235 |
161 |
2.07 |
13.04 |
50.406 |
7.408 |
T P |
1g29_1 |
372 |
235 |
166 |
2.35 |
12.65 |
50.102 |
6.767 |
T P |
3bz1_C |
447 |
235 |
57 |
2.59 |
7.02 |
15.654 |
2.116 |
T P |
3bz1_B |
490 |
235 |
55 |
2.75 |
7.27 |
14.929 |
1.930 |
T P |
1izl_B |
427 |
235 |
40 |
2.30 |
2.50 |
12.396 |
1.667 |
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]