LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_420.5wLII_11277_201
Total number of 3D structures: 16
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
1req_D
622
107
55
2.42
9.09
35.746
2.186
T P
3bic_A
715
107
44
2.13
13.64
34.493
1.970
T P
1e1c_A
727
107
43
2.45
20.93
33.692
1.688
T P
5req_A
725
107
54
2.84
9.26
32.516
1.839
T P
1req_A
727
107
51
2.77
13.73
31.862
1.776
T P
2ob1_A
319
107
45
2.51
6.67
26.827
1.723
T P
2ob2_A
326
107
39
2.70
10.26
24.329
1.395
T P
1rjd_C
333
107
36
2.49
8.33
24.257
1.389
T P
1c30_B
379
107
40
2.67
7.50
23.773
1.444
T P
1a9x_B
378
107
38
2.83
10.53
23.518
1.296
T P
1jdb_F
380
107
35
2.57
5.71
23.455
1.310
T P
2qe6_A
265
107
34
2.38
2.94
23.233
1.372
T P
1t36_B
379
107
37
2.57
8.11
22.762
1.384
T P
1m6v_B
375
107
37
2.70
10.81
22.388
1.321
T P
1cs0_B
378
107
35
2.74
5.71
21.637
1.232
T P
2uyo_A
275
107
34
2.61
5.88
21.422
1.253
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]