LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_430.5wLII_11277_227
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
1vgy_A
375
125
115
1.11
23.48
89.232
9.536
T P
2pok_A
458
125
108
1.77
10.19
79.689
5.769
T P
1q7l_A
192
125
110
1.84
10.91
79.283
5.681
T P
2zog_A
478
125
105
1.96
11.43
73.465
5.100
T P
1lfw_A
468
125
101
1.75
9.90
73.365
5.467
T P
3ct9_B
347
125
99
2.04
9.09
68.287
4.621
T P
2qyv_A
472
125
85
2.27
7.06
45.598
3.583
T P
1o6u_E
396
125
43
2.35
2.33
24.928
1.752
T P
1olm_E
397
125
42
2.45
2.38
24.306
1.648
T P
3es5_A
379
125
44
2.59
9.09
22.845
1.636
T P
1olm_A
393
125
30
2.62
3.33
15.674
1.101
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]