LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_244.5wLII_11212_65
Total number of 3D structures: 16
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
1ytm_A
517
193
168
1.09
16.07
84.176
14.064
T P
1ii2_A
522
193
165
1.37
11.52
81.920
11.207
T P
2py7_X
535
193
160
1.44
13.75
79.327
10.377
T P
2olr_A
535
193
158
1.33
13.92
78.588
11.017
T P
1ayl_A
532
193
158
1.33
13.92
77.816
11.072
T P
1ylh_A
524
193
157
1.64
13.38
74.434
9.031
T P
1j3b_B
518
193
155
1.72
14.84
73.884
8.504
T P
1oen_A
524
193
155
1.71
14.19
73.714
8.547
T P
1yip_A
311
193
45
2.53
2.22
16.558
1.712
T P
1yjl_A
285
193
44
2.56
2.27
15.656
1.656
T P
1phm_A
305
193
42
2.71
2.38
14.782
1.495
T P
1sdw_A
312
193
41
2.41
0.00
14.371
1.636
T P
1l9x_B
294
193
39
2.51
10.26
14.263
1.494
T P
2iqc_A
173
193
41
2.70
12.20
13.735
1.462
T P
1yi9_A
295
193
37
2.84
2.70
12.795
1.259
T P
1yjk_A
303
193
30
2.87
3.33
11.129
1.011
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]