LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_226.5wLII_11195_17
Total number of 3D structures: 10
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
2epi_A
98
96
93
0.69
36.56
96.628
11.703
T P
1lxn_A
99
96
93
1.33
30.11
92.425
6.511
T P
1lxj_A
104
96
93
1.61
25.81
89.688
5.442
T P
1yqh_A
104
96
87
1.53
28.74
87.322
5.354
T P
1vk8_C
94
96
89
1.73
20.22
86.838
4.875
T P
2ibo_A
90
96
87
1.58
16.09
84.288
5.190
T P
1s99_A
186
96
78
1.48
15.38
77.472
4.927
T P
1s7h_A
186
96
77
1.48
15.58
76.713
4.887
T P
2iid_A
483
96
53
2.57
9.43
36.205
1.986
T P
1knv_B
291
96
42
2.23
4.76
34.894
1.799
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]