LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_253.5wLII_11212_89
Total number of 3D structures: 31
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
1v7w_A
779
401
357
1.33
16.53
86.449
25.028
T P
2cqs_A
822
401
345
1.68
15.07
80.409
19.382
T P
3c68_A
758
401
273
2.14
12.09
48.886
12.195
T P
2ds3_A
758
401
252
1.98
13.89
46.351
12.136
T P
2z07_B
403
401
238
1.99
13.87
44.496
11.369
T P
2jf4_A
500
401
229
2.01
11.79
43.971
10.828
T P
2jg0_A
507
401
227
1.94
12.33
43.233
11.107
T P
2okx_A
954
401
234
2.23
14.53
40.511
10.023
T P
2nvp_A
430
401
227
2.33
12.78
40.166
9.350
T P
1ulv_A
1019
401
248
2.44
10.08
38.768
9.745
T P
3cih_A
714
401
225
2.40
16.44
38.071
8.992
T P
2p0v_A
443
401
215
2.37
13.49
37.447
8.720
T P
3gly_A
470
401
227
2.37
11.01
36.688
9.178
T P
2vn4_A
599
401
227
2.34
13.22
36.617
9.321
T P
2fba_A
492
401
219
2.23
15.98
36.454
9.401
T P
1gai_A
472
401
227
2.38
10.57
36.398
9.148
T P
1lf6_A
674
401
227
2.59
7.05
35.160
8.435
T P
2eae_A
887
401
220
2.50
7.27
34.664
8.472
T P
1gah_A
471
401
216
2.41
8.33
34.601
8.602
T P
2eab_A
888
401
220
2.55
5.91
33.806
8.314
T P
2ead_A
886
401
213
2.52
7.04
33.363
8.132
T P
1ump_A
619
401
195
2.20
10.77
32.674
8.488
T P
1h54_B
754
401
200
2.45
9.50
32.386
7.839
T P
2rdy_A
787
401
221
2.70
7.69
32.153
7.892
T P
2sqc_A
623
401
201
2.30
10.45
31.966
8.368
T P
1l1y_A
642
401
202
2.55
6.93
30.704
7.619
T P
1v5d_A
386
401
199
2.49
9.55
30.604
7.683
T P
2gz6_A
372
401
181
2.52
11.05
28.351
6.905
T P
1clc_A
541
401
165
2.61
9.70
25.597
6.087
T P
1yuy_A
558
401
84
2.63
7.14
13.562
3.071
T P
4tmk_A
210
401
56
2.49
8.93
9.404
2.158
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]