LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_462.5wLII_11346_20
Total number of 3D structures: 15
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
2fe1_A
130
141
130
0.79
20.77
90.992
14.618
T P
1v8p_F
144
141
106
1.51
16.04
71.040
6.580
T P
1v8o_H
136
141
106
1.53
16.98
70.955
6.510
T P
2h1c_A
139
141
113
2.32
14.16
57.666
4.677
T P
2h1o_A
143
141
109
2.34
13.76
55.665
4.462
T P
2bsq_A
143
141
109
2.34
13.76
55.665
4.462
T P
3dbo_B
126
141
108
2.27
12.96
53.364
4.551
T P
1y82_A
147
141
98
2.25
10.20
50.691
4.173
T P
1o4w_A
125
141
86
1.99
15.12
46.177
4.117
T P
1v71_A
318
141
70
2.38
10.00
34.029
2.825
T P
2vqd_A
447
141
58
2.31
5.17
30.244
2.410
T P
2dzd_A
459
141
61
2.38
4.92
29.202
2.462
T P
1ulz_A
451
141
54
2.63
9.26
25.394
1.975
T P
2d5w_A
602
141
48
2.30
2.08
24.599
2.001
T P
3dzy_A
302
141
30
2.75
13.33
14.655
1.053
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]