GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
AAA_31 - AAA domain
Pfam: PF13614 (v27) Consensus Sequence
Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )
Clan: CL0023
Length: 157
Sequences: 13811
Seq/Len: 87.97
HH_delta: 0.085 (20Jul13)
GREMLIN Results:
Residue pairs sorted by strength in covariance:

Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

ij Raw Score Scaled Score
88_D118_Y2.093164.239
18_A122_I1.976044.002
25_L120_Y1.906533.861
4_A141_A1.670683.384
30_K120_Y1.505873.050
5_V21_L1.393332.822
33_L118_Y1.375522.786
4_A125_L1.216982.465
31_K119_D1.155792.341
18_A34_L1.061222.149
74_D77_D0.97681.978
20_N23_A0.972631.970
2_V123_V0.94391.912
2_V115_K0.917951.859
25_L122_I0.909171.841
22_A122_I0.905281.834
22_A34_L0.900461.824
30_K119_D0.864371.751
5_V145_I0.852021.726
37_F123_V0.850851.723
76_S117_H0.844971.711
26_A86_G0.792921.606
34_L44_L0.783311.586
19_L44_L0.763131.546
5_V18_A0.751691.522
15_T124_D0.739821.498
26_A87_L0.735731.490
7_S12_V0.720951.460
115_K142_D0.714021.446
25_L32_V0.6971.412
23_A27_R0.694461.407
19_L48_L0.681461.380
35_I123_V0.680191.378
108_E140_L0.677241.372
59_L78_H0.672511.362
108_E112_D0.66031.337
73_R77_D0.659471.336
14_K38_D0.658341.333
19_L47_L0.626351.269
17_L147_V0.609131.234
37_F137_V0.60391.223
33_L121_I0.603691.223
105_E109_E0.602891.221
22_A87_L0.597331.210
2_V121_I0.593151.201
2_V141_A0.584951.185
9_K12_V0.579221.173
107_V111_I0.571981.158
50_I89_L0.57081.156
32_V120_Y0.566641.148
24_A28_K0.564821.144
17_L21_L0.559681.134
37_F56_L0.554971.124
109_E113_A0.549761.113
7_S147_V0.539461.093
24_A27_R0.538751.091
105_E108_E0.536821.087
13_G124_D0.535091.084
79_I88_D0.534181.082
5_V17_L0.532431.078
55_G58_D0.529511.072
3_I120_Y0.526351.066
112_D115_K0.518751.051
125_L137_V0.513221.039
38_D127_S0.511911.037
7_S14_K0.503171.019
109_E112_D0.502331.017
54_R73_R0.500251.013
54_R58_D0.496491.006
14_K127_S0.488330.989
73_R78_H0.479540.971
106_D109_E0.471070.954
113_A116_E0.470550.953
76_S79_I0.46610.944
47_L153_T0.454210.920
57_S61_Y0.450030.911
75_L90_L0.444440.900
58_D63_K0.440550.892
6_W125_L0.43890.889
88_D91_P0.436690.884
45_S52_P0.435590.882
33_L114_L0.43550.882
33_L79_I0.432670.876
40_F130_S0.431010.873
118_Y121_I0.430930.873
44_L47_L0.427760.866
85_D88_D0.427250.865
35_I121_I0.427090.865
97_E100_E0.424350.859
15_T43_S0.423310.857
80_Y91_P0.416760.844
4_A137_V0.415420.841
8_P12_V0.406210.823
54_R78_H0.405830.822
2_V111_I0.401290.813
111_I123_V0.399130.808
96_P99_L0.397960.806
107_V110_L0.39740.805
5_V122_I0.396290.803
32_V119_D0.396280.803
39_F132_P0.395490.801
3_I143_K0.394180.798
31_K118_Y0.391890.794
46_R153_T0.391140.792
15_T44_L0.390060.790
31_K117_H0.388970.788
8_P128_S0.386930.784
39_F57_S0.385110.780
98_D101_E0.384890.780
19_L34_L0.384160.778
13_G17_L0.38120.772
22_A44_L0.380590.771
55_G93_P0.379020.768
147_V150_P0.369830.749
144_I147_V0.369650.749
32_V122_I0.368780.747
44_L48_L0.366950.743
77_D80_Y0.365570.740
41_S93_P0.365250.740
3_I122_I0.363630.736
41_S127_S0.361130.731
9_K124_D0.360950.731
6_W133_D0.359030.727
56_L59_L0.358120.725
48_L87_L0.356580.722
23_A26_A0.356470.722
111_I140_L0.355740.721
131_N135_Q0.353360.716
34_L43_S0.349280.707
36_D45_S0.348530.706
32_V87_L0.34730.703
20_N24_A0.347130.703
59_L90_L0.346690.702
34_L122_I0.345760.700
110_L114_L0.344820.698
26_A32_V0.343840.696
59_L62_D0.342390.693
37_F107_V0.33920.687
113_A117_H0.339190.687
8_P129_L0.338820.686
84_H87_L0.338730.686
29_G32_V0.338530.686
76_S113_A0.336610.682
4_A144_I0.335160.679
57_S63_K0.33380.676
2_V142_D0.3330.674
125_L133_D0.331930.672
26_A84_H0.330920.670
95_S98_D0.330440.669
9_K149_R0.325660.660
137_V141_A0.325560.659
37_F132_P0.321970.652
21_L25_L0.321490.651
13_G147_V0.321470.651
131_N134_T0.321140.650
94_S98_D0.321010.650
115_K121_I0.320880.650
110_L113_A0.318820.646
111_I115_K0.316120.640
149_R152_V0.315890.640
34_L87_L0.314770.638
14_K124_D0.314280.637
106_D110_L0.313020.634
11_G124_D0.312020.632
50_I53_E0.31140.631
8_P147_V0.310450.629
19_L43_S0.307650.623
74_D113_A0.307170.622
40_F127_S0.305590.619
5_V14_K0.305470.619
75_L79_I0.305270.618
132_P135_Q0.304680.617
29_G86_G0.304510.617
138_L144_I0.30440.617
58_D94_S0.304260.616
59_L110_L0.303350.614
56_L90_L0.302210.612
40_F133_D0.30160.611
103_T132_P0.300490.609
33_L90_L0.299220.606
14_K125_L0.29760.603
62_D73_R0.295510.599
13_G16_T0.293370.594
79_I118_Y0.291630.591
76_S80_Y0.291360.590
55_G95_S0.289670.587
10_G124_D0.289230.586
15_T47_L0.288270.584
54_R80_Y0.288250.584
114_L117_H0.287960.583
123_V141_A0.287390.582
8_P14_K0.286810.581
130_S135_Q0.286480.580
104_P108_E0.285040.577
87_L91_P0.284090.575
46_R49_G0.282940.573
112_D116_E0.282350.572
59_L63_K0.280960.569
6_W144_I0.279840.567
10_G16_T0.279670.566
79_I90_L0.278070.563
123_V137_V0.277860.563
41_S129_L0.277390.562
20_N39_F0.277370.562
12_V149_R0.277240.562
3_I25_L0.275980.559
80_Y89_L0.275460.558
55_G63_K0.27540.558
135_Q139_E0.275260.558
58_D61_Y0.275160.557
Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.
HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits:

Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)
PDB Cov Prob HH_delta
3la6A0.942799.90.085
3fkqA0.974599.90.093
3bfvA0.942799.90.098
3pg5A0.961899.90.105
3cioA0.942799.90.107
3ea0A0.961899.90.115
3q9lA0.929999.90.139
3k9gA0.923699.90.144
1g3qA0.929999.90.147
1hyqA0.923699.80.155

Page generated in 0.064 seconds.