LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_223.5wLII_11195_2
Total number of 3D structures: 16
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
2vrt_D
487
144
106
1.89
14.15
65.666
5.338
T P
2vmk_B
495
144
103
1.85
14.56
65.539
5.279
T P
2bx2_L
500
144
76
1.97
11.84
45.687
3.667
T P
1h99_A
220
144
52
2.44
1.92
27.125
2.051
T P
2c2a_A
240
144
42
2.39
4.76
23.681
1.690
T P
1w63_A
589
144
44
2.33
11.36
22.998
1.808
T P
2nuj_A
159
144
42
2.21
4.76
22.601
1.819
T P
2ali_A
130
144
38
2.22
5.26
22.575
1.640
T P
2o6t_A
146
144
39
2.22
5.13
22.412
1.678
T P
2fuj_A
118
144
39
2.33
5.13
22.224
1.606
T P
2o5u_A
144
144
38
2.13
5.26
21.976
1.708
T P
3d36_B
221
144
44
2.42
4.55
21.972
1.749
T P
1joy_A
67
144
39
2.18
0.00
21.307
1.710
T P
2av9_A
142
144
35
2.31
2.86
19.160
1.455
T P
2own_B
258
144
38
2.50
10.53
18.426
1.460
T P
2ess_A
243
144
30
2.67
6.67
14.567
1.084
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]