GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Flavin_Reduct - Flavin reductase like domain
Pfam: PF01613 (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: CL0336
Length: 154
Sequences: 4193
Seq/Len: 27.23
HH_delta: 0.079 (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
57_F127_G1.616543.839
112_R130_V1.508733.583
112_R128_E1.258892.990
114_V128_E1.252972.976
12_T58_T1.058052.513
93_E103_E1.037722.465
48_Y123_T0.97732.321
43_K118_E0.916982.178
95_S110_E0.903172.145
91_T104_E0.902442.143
52_E116_T0.783271.860
56_E112_R0.778941.850
15_E53_E0.768431.825
91_T103_E0.762741.812
10_V73_F0.705631.676
116_T123_T0.698881.660
101_I108_W0.694471.649
97_V110_E0.69441.649
21_G73_F0.680091.615
14_D18_E0.679811.615
38_L124_L0.670431.592
57_F111_C0.669541.590
36_L114_V0.649581.543
6_T25_S0.642361.526
48_Y52_E0.635171.509
19_P92_W0.631691.500
62_L70_A0.615411.462
58_T101_I0.599351.424
111_C127_G0.597091.418
36_L126_I0.56731.347
23_T70_A0.554411.317
83_D88_A0.553951.316
60_N105_A0.549531.305
19_P100_P0.547521.300
21_G102_L0.545261.295
96_P130_V0.544961.294
99_A110_E0.541821.287
49_D53_E0.538271.278
11_V24_V0.533381.267
113_V125_F0.526871.251
117_I126_I0.524131.245
110_E131_A0.523571.244
22_M47_T0.517161.228
30_V38_L0.515761.225
108_W133_H0.515081.223
118_E123_T0.514921.223
96_P131_A0.513581.220
14_D17_G0.507751.206
95_S101_I0.506741.204
95_S99_A0.498091.183
58_T97_V0.491151.167
12_T21_G0.490331.165
56_E99_A0.489191.162
43_K123_T0.487221.157
9_A27_V0.483411.148
40_S124_L0.482961.147
55_G113_V0.477951.135
67_E71_E0.477771.135
27_V37_V0.46961.115
119_V124_L0.461321.096
37_V59_V0.461261.096
63_S66_Q0.45851.089
12_T60_N0.447621.063
49_D80_R0.439011.043
4_Y7_P0.43881.042
72_R89_G0.436531.037
56_E97_V0.427711.016
60_N102_L0.425251.010
28_T38_L0.419020.995
66_Q104_E0.416180.988
116_T125_F0.412340.979
56_E130_V0.41180.978
109_L129_V0.401040.953
15_E18_E0.398670.947
13_T51_I0.398110.946
37_V109_L0.396940.943
22_M41_L0.396680.942
5_P25_S0.39620.941
60_N108_W0.395760.940
10_V21_G0.391420.930
42_N121_D0.389920.926
63_S106_P0.376880.895
47_T84_K0.376810.895
62_L105_A0.375460.892
48_Y125_F0.374570.890
28_T40_S0.371650.883
55_G112_R0.368480.875
58_T99_A0.365020.867
46_H84_K0.364130.865
68_D72_R0.363760.864
13_T50_N0.360340.856
30_V126_I0.354440.842
56_E98_G0.352360.837
11_V39_V0.349510.830
47_T51_I0.34890.829
42_N122_H0.347710.826
74_G84_K0.342560.814
113_V116_T0.339830.807
19_P94_P0.339260.806
55_G116_T0.338040.803
58_T108_W0.337890.803
9_A59_V0.334390.794
68_D71_E0.334380.794
39_V125_F0.330570.785
20_N50_N0.329520.783
82_V87_F0.327330.777
49_D52_E0.325730.774
20_N84_K0.324230.770
57_F113_V0.32320.768
36_L119_V0.321730.764
31_S119_V0.321280.763
58_T110_E0.32080.762
23_T73_F0.31970.759
93_E101_I0.31940.759
51_I55_G0.317450.754
31_S36_L0.316170.751
21_G87_F0.316070.751
15_E54_S0.314670.747
115_Q118_E0.312270.742
26_S29_S0.30680.729
13_T54_S0.305480.726
20_N47_T0.304650.724
51_I57_F0.30380.722
41_L51_I0.302620.719
46_H50_N0.300360.713
24_V39_V0.292620.695
7_P25_S0.292550.695
52_E123_T0.28970.688
71_E75_S0.288970.686
10_V23_T0.288440.685
50_N54_S0.2860.679
97_V130_V0.284180.675
46_H49_D0.282640.671
31_S129_V0.280720.667
37_V111_C0.278240.661
41_L45_S0.27750.659
19_P83_D0.275550.654
30_V119_V0.272230.647
9_A24_V0.27140.645
101_I133_H0.269480.640
73_F87_F0.26820.637
101_I110_E0.266430.633
73_F88_A0.265340.630
14_D19_P0.264650.629
46_H81_D0.264540.628
65_D104_E0.261890.622
16_D53_E0.261850.622
43_K48_Y0.261130.620
46_H80_R0.260250.618
37_V129_V0.259660.617
8_V25_S0.259640.617
42_N45_S0.256550.609
32_L121_D0.255630.607
12_T102_L0.255430.607
36_L120_G0.252020.599
92_W100_P0.249410.592
51_I113_V0.2490.591
14_D94_P0.248690.591
30_V40_S0.248230.590
75_S81_D0.247770.588
26_S39_V0.246850.586
52_E125_F0.246640.586
56_E95_S0.246110.585
10_V102_L0.245690.584
34_P120_G0.245680.584
72_R82_V0.245620.583
8_V70_A0.245590.583
66_Q69_L0.245010.582
105_A108_W0.244150.580
10_V69_L0.242370.576
66_Q105_A0.240920.572
69_L88_A0.240810.572
109_L132_V0.240740.572
39_V51_I0.237390.564
111_C129_V0.236210.561
32_L40_S0.23560.560
96_P110_E0.234420.557
31_S121_D0.234330.557
114_V117_I0.232510.552
31_S34_P0.23250.552
93_E108_W0.232450.552
18_E80_R0.232060.551
72_R75_S0.231930.551
41_L48_Y0.230710.548
27_V109_L0.229770.546
4_Y9_A0.229710.546
28_T124_L0.228590.543
51_I125_F0.228570.543
115_Q119_V0.227450.540
36_L121_D0.227270.540
5_P47_T0.227140.539
36_L128_E0.22630.537
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
3pftA0.94811000.079
4hx6A0.96751000.086
2r0xA0.95451000.086
1i0rA0.95451000.088
3nfwA0.94811000.09
4l82A0.94811000.091
3k86A0.9741000.097
3rh7A0.94161000.099
2d5mA0.99351000.1
3bnkA0.98051000.104

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