LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_319.5wLII_11247_15
Total number of 3D structures: 11
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
2hgs_A
472
441
402
1.05
14.68
88.098
34.817
T P
1m0w_A
481
441
376
1.83
11.44
76.998
19.459
T P
2io8_A
598
441
244
2.53
7.79
33.103
9.267
T P
2vpm_A
600
441
221
2.59
11.76
31.411
8.229
T P
2vob_A
598
441
214
2.52
10.75
30.163
8.160
T P
1gsa_A
314
441
141
2.39
12.77
20.655
5.659
T P
1glv_A
299
441
130
2.60
13.08
18.226
4.806
T P
1wqa_A
455
441
79
2.59
5.06
11.522
2.938
T P
2qbu_A
228
441
78
2.68
5.13
11.336
2.803
T P
1k94_A
165
441
53
2.51
3.77
8.140
2.032
T P
1f4q_B
165
441
49
2.63
4.08
7.316
1.794
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]