LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_96.5wLII_11068_50
Total number of 3D structures: 10
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
1iwl_A
177
197
177
0.33
20.90
89.768
41.137
T P
2zpd_A
183
197
164
1.92
20.73
62.742
8.130
T P
2yzy_A
163
197
133
2.36
10.53
46.707
5.399
T P
3bk5_A
235
197
123
2.24
12.20
43.616
5.247
T P
3buu_A
224
197
120
2.52
8.33
40.666
4.584
T P
2p4b_A
284
197
103
2.49
10.68
36.570
3.971
T P
2v43_B
276
197
104
2.40
7.69
36.541
4.162
T P
2ra1_A
412
197
45
2.73
8.89
14.819
1.588
T P
2sqc_A
623
197
42
2.86
7.14
13.364
1.420
T P
1o4z_B
297
197
35
2.85
11.43
12.432
1.188
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]