LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_315.5wLII_11247_3
Total number of 3D structures: 8
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
1m2a_A
103
104
101
0.56
39.60
96.685
15.349
T P
1m2d_A
101
104
100
0.34
39.00
96.002
22.830
T P
1m2b_A
101
104
100
0.34
39.00
95.930
22.602
T P
2fug_2
178
104
82
1.90
28.05
71.811
4.092
T P
2auv_A
85
104
65
2.11
13.85
44.141
2.944
T P
1u2p_A
156
104
58
2.04
10.34
41.560
2.708
T P
2cwd_B
151
104
59
2.42
10.17
39.593
2.337
T P
1w36_C
1121
104
38
2.46
13.16
25.763
1.485
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]