LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_349.5wLII_11276_162
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
1jx7_A
117
128
117
0.34
22.22
91.283
26.713
T P
2d1p_A
130
128
115
1.51
20.00
83.690
7.141
T P
2hy5_A
130
128
114
1.39
14.91
83.402
7.639
T P
2hy5_B
132
128
113
1.76
20.35
79.910
6.059
T P
1l1s_A
111
128
107
1.74
22.43
76.491
5.816
T P
2pd2_A
108
128
104
1.67
18.27
74.603
5.875
T P
2d1p_B
119
128
114
1.98
13.16
73.715
5.485
T P
2hy5_C
101
128
100
1.60
22.00
71.344
5.871
T P
2d1p_C
95
128
93
1.59
20.43
67.373
5.517
T P
2qs7_A
138
128
110
2.09
11.82
62.837
5.013
T P
2fb6_A
116
128
100
1.86
11.00
61.980
5.099
T P
2a3l_A
616
128
76
2.64
7.89
37.660
2.776
T P
2nvv_A
496
128
64
2.43
10.94
34.951
2.534
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]