LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_346.5wLII_11276_148
Total number of 3D structures: 15
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
1thz_A
590
279
242
1.23
11.57
84.264
18.238
T P
1g8m_A
590
279
242
1.25
11.57
84.217
17.966
T P
1pkx_B
589
279
242
1.32
12.81
83.503
16.993
T P
1m9n_A
590
279
240
1.16
11.67
83.459
19.041
T P
1zcz_B
454
279
200
1.68
13.50
61.630
11.235
T P
1br2_A
673
279
74
2.55
8.11
18.000
2.793
T P
2aw5_B
536
279
71
2.43
8.45
17.446
2.808
T P
3b5v_A
247
279
72
2.65
8.33
16.066
2.618
T P
2qf7_A
1075
279
60
2.74
6.67
14.643
2.109
T P
2yv1_A
268
279
57
2.52
8.77
14.396
2.175
T P
2vqd_A
447
279
55
2.66
12.73
13.661
1.992
T P
1br1_A
787
279
59
2.85
5.08
13.577
1.999
T P
3fhl_C
338
279
50
2.70
0.00
11.859
1.783
T P
1g57_B
209
279
49
2.67
8.16
11.813
1.767
T P
1iez_A
217
279
42
3.00
9.52
9.517
1.357
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]