LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_388.5wLII_11277_106
Total number of 3D structures: 11
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
1byr_A
152
172
152
0.36
26.32
88.145
33.030
T P
1v0w_A
496
172
140
1.71
18.57
74.653
7.728
T P
2ze4_A
501
172
140
1.79
17.14
74.141
7.397
T P
1f0i_A
496
172
139
1.72
18.71
73.559
7.648
T P
2o8r_A
648
172
130
1.82
12.31
65.349
6.765
T P
2c1l_A
358
172
138
1.97
10.87
64.721
6.655
T P
2ze9_A
504
172
139
1.74
17.27
64.198
7.567
T P
1xdp_A
687
172
134
2.08
18.66
58.245
6.139
T P
2f5t_X
233
172
120
2.17
13.33
53.546
5.278
T P
2b3y_A
888
172
70
2.04
4.29
31.771
3.273
T P
1p1m_A
404
172
62
2.57
8.06
25.872
2.325
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]