LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_136.5wLII_11111_5
Total number of 3D structures: 25
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
1psw_A
331
368
330
0.45
19.09
89.308
60.512
T P
2gt1_A
323
368
272
2.13
17.65
52.112
12.202
T P
2h1h_A
322
368
265
2.16
18.11
51.055
11.705
T P
1o6c_B
371
368
172
2.35
11.63
30.809
7.029
T P
1f6d_A
376
368
174
2.56
9.77
29.895
6.535
T P
1vgv_A
376
368
170
2.43
11.18
29.647
6.706
T P
1v4v_A
373
368
155
2.43
15.48
29.412
6.131
T P
2p6p_A
382
368
158
2.42
12.66
28.622
6.258
T P
3beo_A
375
368
171
2.62
9.94
28.467
6.294
T P
1rrv_A
401
368
161
2.50
14.29
27.825
6.189
T P
3dzc_A
373
368
160
2.52
13.75
27.381
6.112
T P
2jjm_A
359
368
160
2.59
10.62
27.233
5.948
T P
3c4v_A
393
368
154
2.59
12.34
26.594
5.734
T P
2f9f_A
166
368
118
1.99
14.41
25.435
5.650
T P
2iyf_B
394
368
139
2.42
15.11
24.903
5.511
T P
2gek_A
361
368
147
2.74
11.56
24.799
5.184
T P
3c48_A
399
368
138
2.49
14.49
24.227
5.335
T P
2vsn_A
534
368
137
2.52
13.14
24.159
5.233
T P
2vsy_A
547
368
139
2.58
12.95
23.988
5.189
T P
2iw1_A
370
368
138
2.91
7.97
22.504
4.577
T P
1f0k_A
351
368
126
2.68
7.94
21.368
4.540
T P
1rcu_A
170
368
113
2.25
15.93
21.024
4.807
T P
2zu6_B
284
368
65
2.48
7.69
11.960
2.523
T P
3eiq_C
278
368
67
2.57
10.45
11.625
2.508
T P
3eij_A
276
368
57
2.43
14.04
10.662
2.253
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]