LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_48.5wLII_10933_31
Total number of 3D structures: 7
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
2v43_B
276
202
176
0.72
16.48
86.160
21.396
T P
2p4b_A
284
202
176
0.77
16.48
85.965
20.178
T P
2yzy_A
163
202
127
1.97
11.81
47.556
6.137
T P
2zpd_A
183
202
116
2.46
4.31
41.217
4.529
T P
3bk5_A
235
202
107
2.31
5.61
39.650
4.446
T P
3buu_A
224
202
97
2.20
7.22
36.756
4.226
T P
1iwl_A
177
202
107
2.47
5.61
35.328
4.165
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]