LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_358.5wLII_11277_5
Total number of 3D structures: 12
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
150
142
0.66
18.31
93.985
18.643
T P
2ze9_A
504
150
135
1.81
14.07
81.459
7.065
T P
1v0w_A
496
150
134
1.77
14.93
81.015
7.160
T P
1f0i_A
496
150
133
1.74
15.04
81.003
7.236
T P
2ze4_A
501
150
133
1.77
13.53
80.977
7.112
T P
2c1l_A
358
150
136
2.03
10.29
72.293
6.400
T P
2o8r_A
648
150
127
1.95
9.45
70.596
6.188
T P
1xdp_A
687
150
127
2.08
12.60
70.109
5.815
T P
2f5t_X
233
150
109
2.03
13.76
57.117
5.119
T P
1qor_A
326
150
65
2.48
10.77
30.105
2.521
T P
2dzx_B
245
150
65
2.78
6.15
27.731
2.259
T P
3dlb_A
637
150
36
2.07
13.89
19.054
1.661
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]