LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_298.5wLII_11238_55
Total number of 3D structures: 9
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
3bul_A
577
282
265
1.20
18.49
89.724
20.449
T P
1msk_A
327
282
265
1.46
18.49
87.601
16.951
T P
1k7y_A
577
282
265
1.45
18.49
87.281
17.132
T P
2o2k_B
333
282
247
1.65
14.17
80.380
14.121
T P
1j6r_A
197
282
154
2.28
14.29
38.750
6.478
T P
2pyw_A
417
282
58
2.63
12.07
13.545
2.122
T P
1bmt_A
246
282
50
2.44
8.00
12.990
1.967
T P
2j1q_A
339
282
40
2.07
2.50
10.604
1.843
T P
2dm9_A
118
282
38
2.78
7.89
9.164
1.319
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]