LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_273.5wLII_11233_49
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
3erv_A
200
170
153
1.41
16.34
84.605
10.130
T P
2bu3_B
204
170
125
2.00
14.40
55.997
5.954
T P
2btw_B
210
170
125
2.10
14.40
53.979
5.684
T P
1pvj_A
339
170
122
2.18
18.03
50.800
5.341
T P
1x9y_A
346
170
120
2.22
16.67
49.515
5.178
T P
2fty_A
531
170
49
2.43
4.08
19.593
1.935
T P
1zd3_A
547
170
41
2.85
0.00
15.793
1.391
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]