LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_274.5wLII_11233_51
Total number of 3D structures: 44
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
3ceq_B
269
179
179
0.81
15.64
98.794
19.670
T P
3edt_B
258
179
178
0.66
16.29
98.621
23.456
T P
2j9q_A
300
179
146
1.69
15.75
74.909
8.173
T P
2c0m_C
302
179
143
1.82
16.78
73.284
7.436
T P
3cv0_A
300
179
139
1.85
10.79
69.796
7.115
T P
1e96_B
185
179
130
1.66
14.62
67.007
7.399
T P
3cvq_A
289
179
137
2.02
11.68
66.811
6.470
T P
1w3b_A
388
179
131
1.76
16.03
66.753
7.043
T P
1hh8_A
192
179
130
1.72
14.62
66.699
7.155
T P
1wm5_A
205
179
129
1.75
14.73
65.936
6.956
T P
2c0l_A
292
179
135
1.99
17.04
65.275
6.461
T P
1kt1_A
374
179
126
1.77
16.67
64.838
6.725
T P
1p5q_A
283
179
128
1.81
14.06
64.774
6.717
T P
1qz2_A
285
179
129
1.88
13.95
64.510
6.524
T P
2fo7_A
136
179
123
1.68
21.14
63.926
6.895
T P
1kt0_A
357
179
122
1.70
17.21
62.849
6.789
T P
2vq2_A
220
179
126
1.92
10.32
62.032
6.228
T P
1ihg_A
364
179
128
1.79
11.72
61.495
6.773
T P
2q7f_A
194
179
128
2.03
17.97
60.378
6.016
T P
2ifu_A
275
179
121
1.86
10.74
60.358
6.185
T P
1a17_A
159
179
118
1.84
11.86
60.003
6.091
T P
1wao_1
471
179
118
1.95
11.86
58.503
5.743
T P
1fch_A
302
179
127
2.17
15.75
58.482
5.591
T P
1na0_A
119
179
114
1.75
21.93
58.431
6.153
T P
2fbn_A
153
179
118
1.96
15.25
57.484
5.737
T P
2fi7_A
223
179
116
2.01
16.38
54.795
5.492
T P
1elw_A
117
179
109
1.86
12.84
54.616
5.551
T P
2ho1_A
222
179
117
2.06
16.24
54.523
5.418
T P
2gw1_A
487
179
123
2.21
12.20
54.430
5.332
T P
2c2l_A
281
179
113
2.10
17.70
53.894
5.147
T P
1xnf_B
262
179
120
2.38
13.33
53.892
4.846
T P
2vyi_A
128
179
106
1.95
15.09
53.192
5.178
T P
2dba_A
148
179
106
2.04
16.98
50.976
4.942
T P
2vsy_A
547
179
107
1.96
13.08
50.158
5.186
T P
2vsn_A
534
179
104
1.99
10.58
49.674
4.974
T P
2bug_A
131
179
106
2.16
9.43
49.236
4.699
T P
1hz4_A
366
179
117
2.30
11.11
49.110
4.884
T P
1elr_A
128
179
104
2.22
12.50
47.928
4.486
T P
2pl2_A
194
179
104
2.29
11.54
47.628
4.354
T P
2if4_A
258
179
104
2.00
12.50
46.973
4.944
T P
1na3_A
86
179
85
1.60
17.65
44.100
4.995
T P
1ouv_A
265
179
88
2.30
6.82
36.408
3.665
T P
2avp_A
68
179
67
1.28
19.40
36.021
4.870
T P
1xi4_A
1630
179
79
2.60
11.39
29.602
2.925
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]