LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_512.5wLII_11386_5
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
222
204
1.02
20.59
89.499
18.288
T P
2vq2_A
220
222
173
1.98
12.14
67.007
8.318
T P
2pl2_A
194
222
170
2.03
15.88
65.612
7.997
T P
2fi7_A
223
222
170
2.03
17.06
64.509
7.986
T P
2ho1_A
222
222
169
2.07
15.98
62.693
7.783
T P
1xnf_B
262
222
164
1.98
13.41
61.857
7.874
T P
2gw1_A
487
222
165
1.98
16.36
61.174
7.937
T P
2vsy_A
547
222
156
2.06
10.90
54.790
7.225
T P
2fo7_A
136
222
128
1.65
23.44
53.167
7.314
T P
1hh8_A
192
222
134
1.97
9.70
53.053
6.487
T P
1e96_B
185
222
130
2.01
10.77
51.688
6.166
T P
1wm5_A
205
222
130
1.99
10.00
51.577
6.211
T P
2c2l_A
281
222
122
1.68
13.11
51.409
6.855
T P
2vsn_A
534
222
139
1.95
10.79
50.295
6.777
T P
2c0l_A
292
222
137
2.10
11.68
49.990
6.214
T P
2vyi_A
128
222
116
1.49
17.24
49.644
7.302
T P
2dba_A
148
222
119
1.58
13.45
49.461
7.085
T P
1a17_A
159
222
116
1.50
13.79
49.285
7.244
T P
2bug_A
131
222
119
1.64
13.45
49.208
6.825
T P
1ihg_A
364
222
119
1.75
11.76
49.022
6.447
T P
1qz2_A
285
222
118
1.74
14.41
48.850
6.396
T P
2c0m_C
302
222
143
2.27
11.89
48.732
6.030
T P
1elr_A
128
222
116
1.55
15.52
48.694
7.011
T P
1elw_A
117
222
116
1.50
12.93
48.455
7.251
T P
2j9q_A
300
222
148
2.33
12.84
48.295
6.098
T P
1p5q_A
283
222
115
1.64
14.78
48.295
6.618
T P
3cv0_A
300
222
141
2.40
11.35
48.237
5.651
T P
1wao_1
471
222
114
1.74
14.91
47.706
6.181
T P
3cvq_A
289
222
140
2.44
10.71
47.173
5.520
T P
1kt1_A
374
222
113
1.67
15.93
47.011
6.389
T P
1fch_A
302
222
132
2.17
12.12
46.872
5.810
T P
1na0_A
119
222
113
1.64
23.01
46.681
6.509
T P
1kt0_A
357
222
110
1.71
16.36
45.873
6.093
T P
2fbn_A
153
222
116
1.98
13.79
45.634
5.566
T P
3edt_B
258
222
126
2.14
16.67
45.126
5.622
T P
2if4_A
258
222
120
1.98
10.83
44.306
5.762
T P
2q7f_A
194
222
128
2.33
14.84
44.129
5.277
T P
3ceq_B
269
222
122
2.25
13.11
41.271
5.186
T P
1ouv_A
265
222
119
2.30
8.40
39.142
4.958
T P
1na3_A
86
222
85
1.36
21.18
36.530
5.831
T P
2avp_A
68
222
68
0.80
22.06
30.180
7.574
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]