LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_305.5wLII_11238_83
Total number of 3D structures: 13
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
3epv_A
109
104
103
0.89
11.65
97.524
10.425
T P
2dq0_A
447
104
74
1.93
9.46
64.569
3.646
T P
1y1u_A
544
104
70
2.10
5.71
57.452
3.182
T P
1wle_B
469
104
69
2.16
5.80
55.323
3.058
T P
1zvu_A
685
104
64
1.94
9.38
53.673
3.144
T P
1qvr_A
803
104
63
1.98
9.52
52.707
3.028
T P
1f5n_A
570
104
67
2.32
7.46
47.458
2.770
T P
1miu_A
671
104
61
2.17
13.11
44.116
2.682
T P
3cmn_A
298
104
56
2.14
5.36
43.893
2.502
T P
3ces_A
531
104
44
2.10
4.55
36.848
2.004
T P
1knv_B
291
104
44
2.26
2.27
36.055
1.861
T P
3cp2_A
491
104
46
2.45
8.70
29.480
1.804
T P
1hm6_A
343
104
34
3.02
8.82
23.450
1.089
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]