LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_541.5wLII_11390_86
Total number of 3D structures: 13
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
2z0v_A
223
154
122
1.66
18.85
74.074
6.948
T P
2c08_A
204
154
122
1.77
22.95
74.003
6.535
T P
1x03_A
210
154
119
1.47
23.53
73.556
7.591
T P
1x04_A
200
154
118
1.41
23.73
73.499
7.825
T P
1zww_A
199
154
116
1.43
24.14
71.665
7.575
T P
2fic_B
201
154
117
2.08
7.69
62.983
5.364
T P
2z0n_A
235
154
109
2.20
9.17
58.241
4.737
T P
2q12_A
242
154
105
2.18
9.52
56.615
4.606
T P
1uru_A
217
154
116
2.20
12.07
56.545
5.041
T P
2q13_A
364
154
110
2.41
9.09
55.359
4.383
T P
2elb_A
351
154
107
2.28
7.48
53.868
4.498
T P
2d4c_B
231
154
102
2.09
17.65
50.803
4.664
T P
2z0o_A
354
154
101
2.42
8.91
49.499
4.009
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]