LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_541.5wLII_11390_86
Total number of 3D structures: 13
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 |
2z0v_A |
223 |
154 |
122 |
1.66 |
18.85 |
74.074 |
6.948 |
T P |
2c08_A |
204 |
154 |
122 |
1.77 |
22.95 |
74.003 |
6.535 |
T P |
1x03_A |
210 |
154 |
119 |
1.47 |
23.53 |
73.556 |
7.591 |
T P |
1x04_A |
200 |
154 |
118 |
1.41 |
23.73 |
73.499 |
7.825 |
T P |
1zww_A |
199 |
154 |
116 |
1.43 |
24.14 |
71.665 |
7.575 |
T P |
2fic_B |
201 |
154 |
117 |
2.08 |
7.69 |
62.983 |
5.364 |
T P |
2z0n_A |
235 |
154 |
109 |
2.20 |
9.17 |
58.241 |
4.737 |
T P |
2q12_A |
242 |
154 |
105 |
2.18 |
9.52 |
56.615 |
4.606 |
T P |
1uru_A |
217 |
154 |
116 |
2.20 |
12.07 |
56.545 |
5.041 |
T P |
2q13_A |
364 |
154 |
110 |
2.41 |
9.09 |
55.359 |
4.383 |
T P |
2elb_A |
351 |
154 |
107 |
2.28 |
7.48 |
53.868 |
4.498 |
T P |
2d4c_B |
231 |
154 |
102 |
2.09 |
17.65 |
50.803 |
4.664 |
T P |
2z0o_A |
354 |
154 |
101 |
2.42 |
8.91 |
49.499 |
4.009 |
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]