LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_119.5wLII_11077_10
Total number of 3D structures: 19
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
2aii_X
274
240
224
0.84
33.93
91.968
23.892
T P
2afy_X
274
240
224
0.83
33.93
91.965
24.154
T P
1y1j_X
275
240
224
0.84
33.93
91.941
23.852
T P
2aij_X
274
240
224
0.84
34.38
91.935
23.776
T P
1z70_X
276
240
224
0.84
33.93
91.932
23.957
T P
1y1h_X
275
240
224
0.84
33.93
91.926
23.873
T P
2q17_E
289
240
218
1.17
35.78
88.916
17.101
T P
1y4j_B
268
240
200
1.39
39.50
80.080
13.397
T P
1yu4_A
376
240
134
1.48
18.66
53.379
8.474
T P
1yu1_A
376
240
134
1.52
17.91
53.282
8.260
T P
2iou_A
376
240
134
1.53
18.66
53.237
8.218
T P
1yu2_A
377
240
134
1.56
17.91
53.004
8.092
T P
1yu3_A
376
240
132
1.63
18.94
50.946
7.614
T P
1yu0_A
376
240
134
1.67
18.66
49.458
7.579
T P
1civ_A
374
240
51
2.66
7.84
14.128
1.848
T P
7mdh_B
360
240
53
2.61
7.55
14.113
1.958
T P
2rdb_A
491
240
47
2.60
4.26
13.230
1.742
T P
2inc_A
491
240
37
2.69
5.41
10.101
1.326
T P
1t0q_A
491
240
34
2.73
11.76
9.452
1.200
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]