LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_457.5wLII_11284_33
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
1vq8_P
143
100
57
2.45
22.81
42.340
2.235
T P
1ffk_M
143
100
59
2.64
13.56
39.172
2.155
T P
3bew_A
271
100
35
2.47
8.57
24.334
1.361
T P
3bdm_C
241
100
31
2.44
6.45
22.768
1.218
T P
3bev_A
274
100
33
2.65
12.12
22.290
1.199
T P
2of7_A
191
100
31
2.60
9.68
21.783
1.150
T P
2vqp_A
254
100
31
2.70
6.45
19.530
1.108
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]