LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_14.5wLII_09975_5
Total number of 3D structures: 8
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 |
1crz_A |
403 |
149 |
120 |
0.97 |
11.67 |
78.836 |
11.212 |
T P |
2hqs_A |
412 |
149 |
118 |
0.99 |
11.02 |
77.464 |
10.836 |
T P |
2w8b_B |
409 |
149 |
117 |
1.01 |
11.11 |
77.137 |
10.502 |
T P |
2w8b_A |
409 |
149 |
117 |
0.97 |
11.11 |
77.116 |
10.940 |
T P |
1c5k_A |
397 |
149 |
118 |
0.98 |
11.86 |
76.952 |
10.940 |
T P |
2iqi_F |
175 |
149 |
88 |
2.14 |
10.23 |
43.110 |
3.931 |
T P |
1qcx_A |
359 |
149 |
28 |
2.74 |
7.14 |
13.280 |
0.986 |
T P |
1vr0_C |
237 |
149 |
22 |
2.41 |
9.09 |
10.363 |
0.878 |
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]