LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_90.5wLII_11068_11
Total number of 3D structures: 14
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
1k87_A
514
268
266
1.07
23.31
96.413
22.765
T P
3e2q_A
469
268
266
1.08
22.93
96.231
22.492
T P
1tj2_A
450
268
266
1.09
23.31
96.144
22.314
T P
1tiw_A
459
268
266
1.10
23.31
96.126
22.232
T P
2g37_B
300
268
239
1.75
33.89
82.822
12.906
T P
2ekg_B
298
268
241
1.75
33.20
82.304
13.012
T P
1a3h_A
300
268
160
2.49
10.00
36.800
6.186
T P
1tvn_A
293
268
154
2.47
7.79
36.326
5.998
T P
1k77_A
260
268
136
2.65
5.88
30.505
4.940
T P
3dx5_A
274
268
135
2.66
9.63
29.592
4.885
T P
2dp3_A
255
268
102
2.58
9.80
24.457
3.810
T P
2fm1_D
344
268
78
2.69
7.69
18.030
2.796
T P
1jg8_D
343
268
72
2.60
6.94
17.647
2.662
T P
1lw4_D
343
268
71
2.71
7.04
17.085
2.530
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]