LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_15.5wLII_09975_6
Total number of 3D structures: 41
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
2c0l_A
292
307
270
1.49
18.15
82.363
16.959
T P
1fch_A
302
307
262
1.52
18.32
80.366
16.204
T P
3cv0_A
300
307
255
1.46
13.73
78.832
16.325
T P
3cvq_A
289
307
255
1.53
13.33
77.960
15.659
T P
2j9q_A
300
307
243
2.00
16.05
68.438
11.551
T P
2c0m_C
302
307
231
2.00
16.45
66.096
10.996
T P
1w3b_A
388
307
148
1.94
8.78
42.947
7.244
T P
2vq2_A
220
307
138
1.95
7.97
40.245
6.728
T P
3edt_B
258
307
148
2.10
6.76
40.221
6.737
T P
1hh8_A
192
307
131
1.61
9.16
39.878
7.654
T P
1e96_B
185
307
133
1.72
9.02
39.825
7.290
T P
2pl2_A
194
307
146
1.98
8.22
39.542
7.022
T P
1wm5_A
205
307
131
1.79
9.16
38.426
6.930
T P
2fo7_A
136
307
123
1.44
13.82
37.916
7.994
T P
3ceq_B
269
307
127
1.93
4.72
37.099
6.243
T P
2ho1_A
222
307
129
2.00
9.30
36.868
6.143
T P
2gw1_A
487
307
133
2.17
9.02
35.577
5.863
T P
1a17_A
159
307
117
1.64
5.98
35.443
6.734
T P
1elw_A
117
307
114
1.39
6.14
34.861
7.667
T P
2fi7_A
223
307
127
2.04
6.30
34.776
5.933
T P
1ihg_A
364
307
119
1.91
13.45
34.606
5.920
T P
1elr_A
128
307
114
1.56
9.65
34.445
6.851
T P
1p5q_A
283
307
112
1.69
15.18
34.060
6.242
T P
1kt1_A
374
307
115
1.93
13.91
34.023
5.660
T P
1wao_1
471
307
125
2.22
7.20
34.020
5.385
T P
1qz2_A
285
307
111
1.73
15.32
33.850
6.051
T P
2fbn_A
153
307
111
1.62
17.12
33.443
6.471
T P
2vyi_A
128
307
111
1.69
10.81
33.395
6.214
T P
2bug_A
131
307
109
1.78
6.42
32.897
5.795
T P
1kt0_A
357
307
110
1.88
15.45
32.479
5.568
T P
2dba_A
148
307
116
2.03
9.48
32.135
5.440
T P
1na0_A
119
307
111
1.99
14.41
32.095
5.320
T P
1xnf_B
262
307
132
2.31
13.64
30.532
5.467
T P
2c2l_A
281
307
113
2.15
6.19
30.465
5.018
T P
2if4_A
258
307
105
1.86
8.57
30.434
5.347
T P
2q7f_A
194
307
112
2.18
7.14
28.634
4.909
T P
2vsn_A
534
307
110
2.19
10.91
28.510
4.806
T P
2vsy_A
547
307
103
2.13
8.74
26.548
4.625
T P
1na3_A
86
307
84
1.55
14.29
25.831
5.076
T P
1ouv_A
265
307
90
2.28
11.11
22.061
3.788
T P
2avp_A
68
307
68
1.10
13.24
21.343
5.662
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]