LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_413.5wLII_11277_174
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
1fyv_A
161
140
136
1.03
22.06
94.627
12.055
T P
1fyw_A
149
140
128
1.79
21.09
86.566
6.789
T P
1fyx_A
149
140
126
1.76
21.43
86.247
6.769
T P
1o77_A
141
140
128
1.46
20.31
86.134
8.207
T P
2j67_A
141
140
126
1.60
21.43
83.014
7.423
T P
1t3g_A
152
140
116
1.88
12.93
64.230
5.846
T P
2js7_A
160
140
116
2.22
9.48
59.618
4.990
T P
2z5v_A
141
140
112
2.17
10.71
58.098
4.925
T P
1nj1_A
463
140
75
2.18
14.67
40.628
3.288
T P
1nyr_A
642
140
65
2.07
15.38
34.930
2.991
T P
2p90_B
271
140
67
2.52
8.96
31.772
2.558
T P
1yey_C
435
140
65
2.58
6.15
30.083
2.428
T P
1otj_A
281
140
51
2.41
3.92
25.118
2.034
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]