LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_545.5wLII_11391_7
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
1w3b_A
388
148
143
0.63
22.38
96.121
19.679
T P
2fi7_A
223
148
139
1.54
14.39
87.636
8.452
T P
2ho1_A
222
148
139
1.55
13.67
87.450
8.415
T P
2vq2_A
220
148
139
1.61
16.55
86.241
8.149
T P
2pl2_A
194
148
139
1.83
14.39
83.905
7.190
T P
2gw1_A
487
148
129
1.77
13.95
79.091
6.887
T P
1xnf_B
262
148
135
2.02
16.30
77.303
6.370
T P
2c0l_A
292
148
126
1.81
15.87
76.588
6.603
T P
2fo7_A
136
148
125
1.95
16.80
75.244
6.099
T P
1hh8_A
192
148
125
1.90
12.00
74.618
6.261
T P
2c2l_A
281
148
118
1.67
13.56
74.501
6.673
T P
1e96_B
185
148
123
1.94
11.38
74.170
6.024
T P
2bug_A
131
148
118
1.58
17.80
74.152
7.019
T P
2vgy_A
132
148
120
1.69
10.83
74.093
6.689
T P
1fch_A
302
148
122
1.89
15.57
73.632
6.122
T P
2vsy_A
547
148
128
1.97
12.50
73.148
6.175
T P
2vyi_A
128
148
116
1.58
15.52
72.961
6.886
T P
1a17_A
159
148
115
1.65
19.13
72.757
6.585
T P
1elr_A
128
148
116
1.65
17.24
72.140
6.616
T P
2dba_A
148
148
116
1.68
14.66
71.681
6.501
T P
1elw_A
117
148
116
1.73
13.79
71.352
6.335
T P
1qz2_A
285
148
118
1.93
12.71
70.972
5.811
T P
1p5q_A
283
148
116
1.89
12.93
70.680
5.828
T P
1wm5_A
205
148
121
1.93
11.57
70.505
5.955
T P
1wao_1
471
148
115
2.05
19.13
70.289
5.356
T P
3cvq_A
289
148
117
1.96
17.09
69.028
5.669
T P
1kt1_A
374
148
115
1.97
13.04
68.545
5.555
T P
1ihg_A
364
148
111
1.87
13.51
67.845
5.646
T P
2q7f_A
194
148
116
2.05
13.79
67.237
5.395
T P
1kt0_A
357
148
110
1.92
11.82
66.283
5.449
T P
2c0m_C
302
148
115
2.06
13.04
65.294
5.319
T P
3edt_B
258
148
108
2.07
13.89
63.618
4.967
T P
1na0_A
119
148
105
1.96
16.19
63.608
5.108
T P
2j9q_A
300
148
116
2.10
12.93
63.395
5.272
T P
3cv0_A
300
148
111
2.18
14.41
62.874
4.866
T P
2vsn_A
534
148
116
2.04
12.93
61.803
5.432
T P
2fbn_A
153
148
109
2.00
13.76
61.555
5.203
T P
2if4_A
258
148
103
1.91
15.53
60.995
5.128
T P
3ceq_B
269
148
111
2.27
14.41
55.192
4.686
T P
1na3_A
86
148
83
1.58
16.87
51.799
4.932
T P
2avp_A
68
148
68
0.83
25.00
45.321
7.306
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]