LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_106.5wLII_11068_88
Total number of 3D structures: 20
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
2vqm_A
391
130
117
1.04
17.95
87.928
10.251
T P
2vqo_A
360
130
117
1.05
17.95
87.868
10.162
T P
2vqq_A
361
130
117
1.04
17.95
87.868
10.219
T P
2vqw_G
382
130
117
1.06
17.95
87.682
10.076
T P
2nvr_A
386
130
117
1.08
18.80
87.584
9.926
T P
2pqp_A
386
130
117
1.07
18.80
87.578
9.964
T P
1zz1_A
367
130
113
1.24
19.47
83.580
8.416
T P
2vcg_D
375
130
113
1.26
19.47
83.424
8.335
T P
3ewf_A
364
130
113
1.25
12.39
83.131
8.381
T P
2v5w_B
367
130
113
1.24
12.39
83.128
8.434
T P
3ezp_A
357
130
113
1.29
12.39
83.030
8.126
T P
3f0r_B
366
130
113
1.26
12.39
83.030
8.286
T P
1t64_A
364
130
113
1.26
12.39
82.955
8.333
T P
2v5x_A
363
130
113
1.28
12.39
82.777
8.162
T P
3ew8_A
357
130
113
1.28
12.39
82.726
8.186
T P
3f06_A
356
130
113
1.31
12.39
82.686
7.995
T P
3ezt_A
357
130
113
1.32
12.39
82.581
7.983
T P
1c3r_A
372
130
114
1.48
15.79
82.055
7.236
T P
1c3p_A
372
130
114
1.48
15.79
81.994
7.215
T P
2jbr_A
399
130
43
2.59
0.00
21.861
1.599
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]