LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_176.5wLII_11172_72
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
1q06_B
126
91
86
0.65
17.44
93.744
11.432
T P
1r8d_A
109
91
80
1.54
11.25
82.104
4.871
T P
1r8e_A
275
91
81
1.72
11.11
81.449
4.444
T P
3d6z_A
277
91
81
1.74
11.11
81.386
4.391
T P
3d70_A
276
91
81
1.77
11.11
81.367
4.327
T P
3d71_A
277
91
81
1.74
11.11
81.261
4.394
T P
2dg6_A
207
91
75
1.85
12.00
75.318
3.842
T P
2zhg_A
121
91
79
1.97
12.66
72.833
3.818
T P
2jml_A
81
91
65
2.06
10.77
54.216
3.004
T P
1q08_A
94
91
46
1.52
17.39
46.742
2.841
T P
1l1l_A
717
91
46
2.33
8.70
39.985
1.894
T P
1v8f_A
276
91
32
2.21
0.00
28.073
1.383
T P
1ufv_A
276
91
25
2.70
8.00
20.077
0.894
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]