LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_379.5wLII_11277_71
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
1q06_B
126
106
83
2.04
12.05
69.584
3.883
T P
1r8d_A
109
106
73
2.22
8.22
53.989
3.143
T P
3d71_A
277
106
79
2.20
6.33
51.802
3.434
T P
1r8e_A
275
106
80
2.32
6.25
51.509
3.311
T P
2zhg_A
121
106
72
2.35
11.11
50.714
2.933
T P
3d70_A
276
106
80
2.42
6.25
49.967
3.176
T P
3d6z_A
277
106
75
2.63
4.00
48.778
2.747
T P
1q08_A
94
106
64
2.47
7.81
42.489
2.491
T P
3ciw_A
346
106
34
2.31
5.88
23.425
1.411
T P
3cix_A
346
106
25
2.42
0.00
16.981
0.992
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]