LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_443.5wLII_11277_287
Total number of 3D structures: 20
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
1a8i_A
812
130
95
1.66
15.79
70.196
5.410
T P
2gm9_A
805
130
95
1.52
15.79
69.860
5.878
T P
1c50_A
830
130
94
1.58
15.96
69.514
5.585
T P
2qnb_A
810
130
95
1.71
15.79
69.488
5.238
T P
1xc7_A
810
130
94
1.60
15.96
69.358
5.530
T P
2pyi_A
806
130
94
1.51
15.96
68.987
5.825
T P
2gj4_A
803
130
95
1.73
15.79
68.882
5.197
T P
2ffr_A
810
130
93
1.66
16.13
68.514
5.277
T P
1c8k_A
830
130
94
1.70
15.96
68.247
5.216
T P
1lwn_A
815
130
93
1.73
13.98
67.820
5.090
T P
1z8d_A
820
130
96
1.81
13.54
67.624
5.027
T P
1noj_A
831
130
93
1.63
17.20
67.172
5.385
T P
1abb_A
823
130
95
1.87
12.63
66.054
4.824
T P
1y1u_A
544
130
48
2.05
4.17
28.141
2.233
T P
1u1j_A
746
130
54
2.82
5.56
27.017
1.850
T P
1m5y_D
389
130
43
2.23
6.98
26.637
1.843
T P
1f5n_A
570
130
51
2.72
7.84
26.307
1.807
T P
1ij5_A
305
130
51
2.82
5.88
24.727
1.748
T P
2pv3_A
284
130
37
1.84
2.70
24.507
1.905
T P
1jqg_A
409
130
40
2.68
7.50
20.562
1.437
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]