LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_228.5wLII_11195_20
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
3eo7_A
487
522
486
0.47
39.30
92.608
85.565
T P
3gbh_B
213
522
136
1.83
16.18
23.734
7.041
T P
3g14_B
179
522
138
1.82
16.67
23.671
7.189
T P
1bkj_A
230
522
141
1.90
24.11
23.575
7.052
T P
3ge6_A
210
522
131
1.73
17.56
22.860
7.151
T P
3eof_A
248
522
131
1.84
19.85
22.452
6.739
T P
1f5v_A
240
522
128
1.72
15.62
22.412
7.025
T P
3e10_B
167
522
131
1.90
17.56
22.118
6.544
T P
2b67_A
201
522
142
1.85
17.61
21.714
7.282
T P
3gag_A
206
522
140
2.00
17.14
21.503
6.676
T P
2fre_A
200
522
127
1.84
16.54
21.446
6.532
T P
1zch_A
249
522
139
1.83
23.74
21.101
7.189
T P
3bem_B
210
522
141
2.06
17.73
20.980
6.541
T P
3e39_A
175
522
137
1.98
18.98
20.761
6.580
T P
2r01_A
195
522
132
1.86
14.39
20.541
6.738
T P
1vkw_A
217
522
148
2.06
10.81
20.353
6.858
T P
1ywq_A
199
522
143
2.11
11.19
20.024
6.462
T P
2hay_D
222
522
139
2.10
16.55
19.988
6.320
T P
3ek3_A
187
522
133
1.91
21.80
19.834
6.614
T P
1nox_A
200
522
137
2.00
21.90
19.708
6.516
T P
1nec_A
216
522
140
2.10
15.71
19.619
6.350
T P
1yki_B
217
522
139
2.09
17.27
19.577
6.335
T P
1icv_A
216
522
141
2.14
17.02
19.570
6.308
T P
1vfr_A
217
522
135
2.08
11.85
18.868
6.205
T P
1kqb_A
216
522
139
2.13
16.55
18.853
6.238
T P
1v5y_A
217
522
138
2.11
12.32
18.604
6.251
T P
2isk_A
219
522
137
2.16
18.25
18.427
6.062
T P
3eo8_A
219
522
131
2.03
16.03
18.290
6.143
T P
1yw3_B
201
522
127
2.07
13.39
18.121
5.863
T P
2ifa_B
201
522
132
2.17
12.12
17.972
5.816
T P
2i7h_A
187
522
131
2.28
14.50
17.774
5.508
T P
2h0u_A
196
522
120
2.05
14.17
17.340
5.576
T P
3bm1_A
177
522
120
2.15
17.50
16.777
5.336
T P
3bm2_B
166
522
116
2.17
18.10
16.324
5.116
T P
1z5x_U
193
522
64
2.63
9.38
8.220
2.341
T P
1w6k_A
725
522
51
2.61
11.76
6.484
1.882
T P
1ft8_C
244
522
44
2.65
9.09
5.658
1.602
T P
1fo1_A
215
522
43
2.82
13.95
5.365
1.474
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]