LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_271.5wLII_11233_43
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
2fo7_A
136
136
120
0.67
20.00
87.900
15.657
T P
1w3b_A
388
136
122
1.02
18.03
87.342
10.912
T P
2vq2_A
220
136
120
1.54
12.50
82.305
7.329
T P
2c0l_A
292
136
117
1.43
11.97
82.127
7.648
T P
2fi7_A
223
136
119
1.51
13.45
81.824
7.382
T P
2ho1_A
222
136
120
1.60
15.00
81.663
7.060
T P
3cv0_A
300
136
118
1.49
13.56
81.547
7.409
T P
2pl2_A
194
136
120
1.63
15.00
81.250
6.948
T P
3cvq_A
289
136
118
1.58
13.56
81.182
7.010
T P
1e96_B
185
136
117
1.68
9.40
80.144
6.568
T P
2q7f_A
194
136
118
1.73
16.95
79.918
6.434
T P
1hh8_A
192
136
116
1.64
9.48
79.776
6.661
T P
1fch_A
302
136
116
1.59
12.07
79.567
6.866
T P
1wm5_A
205
136
116
1.78
10.34
78.252
6.180
T P
2c0m_C
302
136
114
1.67
12.28
78.061
6.427
T P
2gw1_A
487
136
116
1.87
16.38
76.332
5.884
T P
1xnf_B
262
136
117
2.02
12.82
75.964
5.523
T P
2j9q_A
300
136
107
1.54
9.35
74.519
6.521
T P
3edt_B
258
136
112
1.85
8.04
73.272
5.737
T P
2c2l_A
281
136
106
1.69
16.04
72.822
5.919
T P
2e2e_A
171
136
108
1.97
8.33
72.437
5.229
T P
1qz2_A
285
136
102
1.22
15.69
72.262
7.717
T P
1ihg_A
364
136
102
1.20
16.67
72.049
7.844
T P
2vyi_A
128
136
101
1.15
16.83
71.875
8.084
T P
1p5q_A
283
136
102
1.25
16.67
71.843
7.571
T P
1kt1_A
374
136
102
1.22
15.69
71.811
7.725
T P
1a17_A
159
136
102
1.26
9.80
71.627
7.481
T P
1na0_A
119
136
101
1.20
21.78
71.623
7.760
T P
2dba_A
148
136
103
1.54
12.62
71.162
6.263
T P
1wao_1
471
136
101
1.24
9.90
71.056
7.532
T P
2bug_A
131
136
102
1.45
10.78
70.030
6.586
T P
1elw_A
117
136
101
1.53
12.87
69.776
6.209
T P
1elr_A
128
136
102
1.53
14.71
69.543
6.252
T P
3ceq_B
269
136
108
1.90
15.74
69.313
5.390
T P
2vsy_A
547
136
114
2.14
14.91
69.211
5.081
T P
1kt0_A
357
136
97
1.22
14.43
68.557
7.356
T P
2fbn_A
153
136
101
1.59
12.87
68.457
5.983
T P
2vsn_A
534
136
109
2.07
14.68
66.922
5.031
T P
2if4_A
258
136
94
1.62
9.57
65.101
5.456
T P
1na3_A
86
136
81
1.02
24.69
58.733
7.244
T P
2avp_A
68
136
68
0.58
20.59
49.771
10.032
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]