LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_54.5wLII_10954_19
Total number of 3D structures: 35
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
1xhb_A
447
326
293
0.88
21.16
88.095
29.871
T P
2ffu_A
494
326
284
1.54
17.25
81.746
17.302
T P
2d7i_A
536
326
282
1.43
20.21
81.274
18.443
T P
2z86_C
603
326
187
2.13
12.83
42.841
8.401
T P
2z87_A
601
326
187
2.10
12.83
42.571
8.487
T P
2bo4_A
380
326
173
2.33
10.40
35.668
7.107
T P
3bcv_A
196
326
145
2.06
21.38
35.396
6.719
T P
1qg8_A
238
326
169
2.17
19.53
35.177
7.434
T P
3ckj_A
300
326
159
2.27
16.98
34.640
6.703
T P
2apc_A
342
326
164
2.21
8.54
33.772
7.107
T P
1nmm_B
272
326
150
2.11
11.33
33.509
6.786
T P
3e26_A
274
326
160
2.31
16.25
33.494
6.639
T P
1yro_B
272
326
149
2.17
12.08
33.395
6.553
T P
1j94_B
271
326
152
2.15
12.50
33.187
6.764
T P
1jn8_B
271
326
152
2.17
11.84
33.038
6.697
T P
2fyd_B
272
326
153
2.17
11.76
32.861
6.728
T P
1j8w_B
271
326
148
2.06
11.49
32.820
6.847
T P
2nxv_A
249
326
153
2.20
14.38
32.819
6.665
T P
2fyc_B
272
326
150
2.16
12.67
32.776
6.627
T P
2qgi_A
248
326
154
2.16
14.94
32.710
6.824
T P
1nhe_B
272
326
150
2.19
10.00
32.634
6.545
T P
1pzt_A
271
326
143
2.15
12.59
32.339
6.344
T P
1nf5_B
272
326
152
2.19
11.84
32.099
6.628
T P
1fgx_B
273
326
142
2.11
12.68
31.935
6.414
T P
2fy7_A
268
326
142
2.08
13.38
31.918
6.505
T P
1fr8_A
271
326
144
2.16
12.50
31.599
6.364
T P
2ux8_G
288
326
138
2.58
6.52
25.884
5.155
T P
2oil_A
174
326
70
2.32
10.00
14.824
2.890
T P
3g1w_A
291
326
67
2.38
8.96
14.686
2.698
T P
1pjj_A
271
326
53
2.57
7.55
10.704
1.984
T P
3ez1_B
419
326
55
3.05
7.27
10.414
1.746
T P
2bb5_A
409
326
48
2.80
6.25
10.098
1.658
T P
1tdz_A
265
326
51
2.89
5.88
9.919
1.706
T P
3c58_A
269
326
43
2.71
4.65
9.205
1.531
T P
1kfv_A
264
326
42
2.71
7.14
8.474
1.497
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]