LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_287.5wLII_11238_33
Total number of 3D structures: 8
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
1kkg_A
108
107
104
0.41
26.92
96.901
20.364
T P
1jos_A
100
107
82
2.23
26.83
55.258
3.521
T P
2e7g_A
129
107
77
2.38
11.69
50.070
3.102
T P
2dyj_A
91
107
74
2.24
20.27
47.943
3.169
T P
1pa4_A
96
107
69
2.46
7.25
42.379
2.700
T P
1uvd_A
300
107
52
2.70
3.85
30.466
1.855
T P
2hiv_A
577
107
50
2.72
2.00
29.799
1.772
T P
1f4j_C
481
107
33
2.63
6.06
20.425
1.211
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]