LGA
Sequence Independent Analysis (LGA)
Frame of reference: Cat.Q2246_545_70.5wLII_10961_37
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 |
1wht_A |
256 |
136 |
122 |
1.63 |
16.39 |
84.162 |
7.064 |
T P |
1bcs_A |
255 |
136 |
122 |
1.63 |
16.39 |
84.136 |
7.050 |
T P |
3sc2_A |
254 |
136 |
122 |
1.64 |
16.39 |
84.123 |
7.016 |
T P |
1whs_A |
255 |
136 |
122 |
1.64 |
16.39 |
83.698 |
6.998 |
T P |
1ivy_A |
452 |
136 |
122 |
1.59 |
14.75 |
83.691 |
7.204 |
T P |
1gxs_A |
267 |
136 |
121 |
1.79 |
15.70 |
81.385 |
6.411 |
T P |
1ac5_A |
483 |
136 |
120 |
1.86 |
15.00 |
78.732 |
6.137 |
T P |
1cpy_A |
421 |
136 |
119 |
1.87 |
18.49 |
77.044 |
6.043 |
T P |
1wpx_A |
421 |
136 |
118 |
1.86 |
18.64 |
76.047 |
6.028 |
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]