LGA
Sequence Independent Analysis (LGA)

Frame of reference: Cat.Q2246_545_59.5wLII_10954_62
Total number of 3D structures: 39
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
2iko_A
338
139
107
1.96
11.21
65.459
5.192
T P
2i4q_A
336
139
106
1.92
13.21
65.417
5.247
T P
2g24_A
329
139
104
1.86
11.54
61.818
5.307
T P
1hrn_A
334
139
105
1.91
10.48
61.042
5.227
T P
3d91_B
337
139
105
1.99
13.33
60.438
5.016
T P
1smr_A
331
139
103
2.16
10.68
58.565
4.548
T P
1lya_B
241
139
104
2.22
13.46
56.613
4.492
T P
3cms_A
320
139
103
2.28
13.59
51.937
4.336
T P
1uh9_A
325
139
97
2.25
17.53
51.687
4.126
T P
1tzs_A
322
139
96
2.17
6.25
50.485
4.236
T P
1flh_A
326
139
99
2.26
6.06
50.260
4.196
T P
3psg_A
365
139
95
2.10
13.68
50.025
4.322
T P
1dpj_A
329
139
97
2.26
7.22
49.517
4.114
T P
4cms_A
320
139
95
2.11
14.74
49.386
4.291
T P
1psa_A
326
139
94
2.13
13.83
48.839
4.215
T P
1yg9_A
330
139
94
2.04
9.57
48.809
4.398
T P
1htr_B
329
139
95
2.08
8.42
48.647
4.357
T P
5pep_A
326
139
94
2.26
12.77
48.402
3.988
T P
4pep_A
326
139
96
2.12
12.50
48.222
4.316
T P
1fq5_A
329
139
97
2.33
7.22
47.907
4.000
T P
1qrp_E
326
139
94
2.26
10.64
47.765
3.978
T P
1g0v_A
329
139
94
2.20
8.51
47.724
4.083
T P
2apr_A
325
139
92
2.06
14.13
47.638
4.253
T P
1f34_A
326
139
93
2.18
12.90
47.593
4.088
T P
2qzx_A
342
139
93
2.07
7.53
47.571
4.292
T P
1am5_A
324
139
93
2.21
9.68
47.420
4.032
T P
1od1_A
330
139
93
2.24
11.83
46.919
3.980
T P
2h6t_A
340
139
93
2.33
5.38
46.453
3.828
T P
1j71_A
334
139
96
2.41
7.29
45.914
3.821
T P
1zap_A
341
139
93
2.29
5.38
45.547
3.898
T P
1eag_A
339
139
91
2.29
6.59
45.441
3.805
T P
1jgf_A
328
139
90
2.27
11.11
45.267
3.805
T P
1oew_A
328
139
92
2.36
10.87
45.224
3.734
T P
2ewy_A
374
139
92
2.34
13.04
45.130
3.773
T P
2asi_A
356
139
90
2.40
4.44
44.969
3.600
T P
2qzw_A
341
139
91
2.33
6.59
44.354
3.750
T P
2anl_A
327
139
89
2.20
8.99
44.170
3.873
T P
1b5f_A
239
139
72
2.10
15.28
39.845
3.275
T P
2id5_B
473
139
42
2.11
4.76
22.742
1.903
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]