LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_452.5wLII_11284_4
Total number of 3D structures: 38
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
2obw_A
252
159
142
0.84
16.90
87.802
15.095
T P
2p18_A
283
159
141
1.50
12.06
84.067
8.801
T P
1xm8_A
254
159
139
1.28
14.39
83.309
10.069
T P
1qh5_A
260
159
139
1.45
10.07
82.313
8.946
T P
2gcu_A
244
159
135
1.85
12.59
75.840
6.909
T P
1sml_A
266
159
126
1.71
12.70
72.694
6.946
T P
1vme_A
402
159
130
1.95
5.38
72.134
6.354
T P
2qjs_A
248
159
126
1.79
13.49
71.949
6.671
T P
2qin_C
265
159
125
1.78
14.40
71.733
6.658
T P
3fcz_A
219
159
133
2.04
10.53
70.470
6.214
T P
2uyx_A
218
159
134
2.11
11.19
69.825
6.074
T P
1bmc_A
213
159
133
2.13
9.77
69.438
5.973
T P
2gmn_A
264
159
125
1.83
6.40
69.147
6.477
T P
1ddk_A
220
159
128
2.02
10.16
68.737
6.032
T P
2nyp_A
215
159
133
2.14
9.77
68.609
5.934
T P
2nzf_A
215
159
130
2.04
9.23
68.469
6.063
T P
2bc2_A
218
159
132
2.07
9.85
67.638
6.089
T P
1mqo_A
221
159
133
2.15
9.77
67.533
5.905
T P
1ko3_A
230
159
129
2.06
10.85
66.452
5.963
T P
2nze_B
217
159
135
2.18
8.89
66.132
5.925
T P
1p9e_A
294
159
128
2.02
10.94
65.429
6.045
T P
1ko2_A
230
159
129
2.11
10.85
65.103
5.830
T P
2yz3_A
225
159
130
2.11
10.00
64.814
5.877
T P
2ohh_A
403
159
127
1.95
8.66
64.766
6.207
T P
1m2x_A
219
159
134
2.19
11.19
64.259
5.850
T P
2cfu_A
627
159
129
2.06
6.98
63.264
5.976
T P
2bfl_B
220
159
132
2.11
9.85
63.188
5.973
T P
1dxk_A
221
159
133
2.16
9.02
62.947
5.881
T P
1ycg_A
398
159
128
1.96
3.91
62.160
6.223
T P
1jje_B
221
159
129
2.07
11.63
61.449
5.955
T P
1jjt_A
220
159
126
2.01
10.32
60.604
5.984
T P
1wup_A
217
159
131
2.13
9.92
60.201
5.877
T P
2bg7_B
219
159
119
2.00
10.92
59.437
5.660
T P
2br6_A
240
159
124
2.08
8.06
58.480
5.676
T P
3dha_A
254
159
125
2.11
8.00
58.450
5.654
T P
2a7m_A
250
159
125
2.09
7.20
58.346
5.706
T P
2cg3_A
627
159
118
1.97
9.32
55.982
5.696
T P
1ztc_A
209
159
113
1.97
10.62
55.355
5.468
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]