LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_203.5wLII_11184_19
Total number of 3D structures: 40
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
2vi7_C
165
72
70
0.97
21.43
95.797
6.558
T P
2i79_A
171
72
69
1.42
14.49
90.856
4.536
T P
2cnt_A
151
72
69
1.42
14.49
90.162
4.532
T P
1yvo_B
171
72
68
1.43
14.71
89.833
4.459
T P
2ge3_A
164
72
68
1.49
11.76
89.663
4.278
T P
1vhs_A
165
72
68
1.62
14.71
89.126
3.959
T P
2j8m_A
171
72
68
1.52
14.71
88.907
4.192
T P
1y9k_B
154
72
67
1.43
14.93
88.798
4.393
T P
2bl1_A
170
72
68
1.70
14.71
88.639
3.768
T P
1j4j_A
170
72
69
1.53
14.49
88.560
4.222
T P
1ghe_B
171
72
69
1.55
14.49
88.438
4.181
T P
2jlm_D
182
72
68
1.61
8.82
88.274
3.974
T P
2ob0_C
166
72
68
1.50
10.29
88.030
4.256
T P
1yr0_A
163
72
68
1.65
17.65
88.006
3.879
T P
1yvk_A
152
72
67
1.60
8.96
87.281
3.951
T P
3dr6_A
172
72
67
1.74
11.94
86.962
3.637
T P
1tiq_A
173
72
68
1.75
13.24
86.257
3.684
T P
1wwz_A
157
72
64
1.54
17.19
84.156
3.905
T P
2cy2_A
174
72
66
1.96
15.15
81.412
3.209
T P
2ae6_A
148
72
64
2.00
10.94
80.669
3.044
T P
1z4e_A
150
72
64
1.90
7.81
80.246
3.199
T P
3ec4_A
224
72
62
1.88
12.90
79.735
3.137
T P
1i12_D
157
72
61
1.66
9.84
79.697
3.471
T P
1vkc_A
149
72
62
1.68
16.13
79.617
3.475
T P
3fb3_B
149
72
62
1.73
11.29
79.502
3.382
T P
1i1d_D
161
72
61
1.85
6.56
78.418
3.136
T P
2b5g_B
159
72
60
1.67
11.67
78.054
3.388
T P
1yx0_A
151
72
58
1.59
12.07
77.558
3.437
T P
2b3u_B
164
72
59
1.56
11.86
77.144
3.552
T P
2fiw_A
160
72
60
1.59
11.67
76.961
3.550
T P
3bj7_A
162
72
60
1.71
11.67
76.791
3.323
T P
2fe7_B
166
72
60
1.76
15.00
76.552
3.227
T P
2fxf_A
164
72
59
1.60
10.17
75.256
3.470
T P
2g3t_A
169
72
58
1.82
12.07
74.018
3.027
T P
1i21_B
157
72
61
2.01
6.56
73.002
2.890
T P
2b5g_A
164
72
59
2.06
10.17
72.470
2.733
T P
2jev_A
169
72
58
1.92
12.07
72.260
2.878
T P
1u6m_A
189
72
61
2.20
14.75
71.648
2.656
T P
1q2y_A
140
72
63
2.12
9.52
70.962
2.837
T P
2bei_B
159
72
56
1.86
12.50
70.631
2.861
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]