LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_178.5wLII_11181_1
Total number of 3D structures: 13
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
2r4l_B
421
200
105
2.42
4.76
38.047
4.174
T P
2r4o_A
421
200
105
2.37
5.71
37.832
4.257
T P
2r4p_A
418
200
105
2.39
5.71
36.935
4.216
T P
3dwo_X
444
200
100
2.34
10.00
36.896
4.105
T P
2r89_A
363
200
96
2.24
5.21
36.065
4.099
T P
3dwn_A
421
200
97
2.31
12.37
35.913
4.029
T P
2r4n_A
421
200
102
2.45
7.84
35.844
4.001
T P
1t16_A
427
200
102
2.35
5.88
35.768
4.155
T P
3bry_A
389
200
96
2.31
13.54
35.691
3.991
T P
2r8a_A
360
200
96
2.41
5.21
35.085
3.822
T P
2r88_A
365
200
97
2.48
7.22
34.959
3.765
T P
1pho_A
330
200
101
2.30
5.94
34.653
4.215
T P
3bs0_A
414
200
94
2.19
12.77
34.550
4.101
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]