LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_206.5wLII_11184_30
Total number of 3D structures: 12
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
1v8g_A
329
331
317
0.56
20.19
95.023
48.054
T P
2elc_A
329
331
317
0.85
19.87
93.755
33.271
T P
1k8e_D
345
331
313
1.66
19.49
85.529
17.795
T P
1vqu_A
334
331
301
1.52
23.26
85.235
18.625
T P
1khd_D
329
331
310
1.79
18.06
83.536
16.445
T P
1zvw_A
346
331
303
1.74
22.11
83.286
16.433
T P
2bpq_A
344
331
300
1.86
22.33
76.464
15.270
T P
1uou_A
438
331
253
2.22
17.00
53.410
10.899
T P
2tpt_A
440
331
269
2.22
13.38
53.206
11.605
T P
2j0f_A
446
331
251
2.35
17.53
52.170
10.224
T P
2dsj_A
423
331
251
2.27
13.94
51.571
10.603
T P
1brw_A
433
331
254
2.30
12.99
51.177
10.602
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]