LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_125.5wLII_11077_35
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
1bcc_C
379
149
127
1.85
14.96
79.151
6.507
T P
1pp9_P
370
149
133
2.19
15.04
74.358
5.819
T P
3cx5_C
385
149
131
2.15
17.56
73.898
5.828
T P
1ezv_C
385
149
131
2.13
17.56
73.808
5.878
T P
2qjp_A
428
149
123
2.03
15.45
70.892
5.773
T P
2qjk_A
428
149
125
2.17
16.00
70.809
5.495
T P
1zrt_C
427
149
126
2.15
15.87
70.468
5.598
T P
1qcr_C
378
149
129
2.30
14.73
70.448
5.373
T P
2qjy_A
428
149
120
2.01
15.00
69.802
5.684
T P
2zt9_B
160
149
102
2.40
14.71
53.594
4.088
T P
2e74_B
160
149
99
2.29
17.17
49.862
4.137
T P
1q90_D
156
149
102
2.28
19.61
49.566
4.286
T P
1um3_B
138
149
95
2.40
17.89
46.451
3.808
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]