GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Aldo_ket_red - Aldoketo reductase family
Pfam: PF00248 (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. )
Length: 283
Sequences: 14227
Seq/Len: 50.27
HH_delta: 0.063 (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
25_R260_E2.039092.950
89_E130_K2.037942.948
54_R96_G1.829672.647
16_E51_R1.747392.528
228_H274_E1.698712.458
88_L125_L1.642032.376
25_R29_A1.591262.302
227_E277_E1.589172.299
85_R128_E1.512532.188
271_T274_E1.467592.123
85_R124_E1.444582.090
65_I97_T1.440662.084
272_E276_A1.316981.905
227_E274_E1.31541.903
20_E55_K1.315191.903
124_E128_E1.309811.895
67_T100_I1.307581.892
222_R226_E1.306471.890
90_R94_R1.275221.845
123_E127_K1.262551.827
20_E51_R1.237811.791
223_E277_E1.235681.788
256_P260_E1.211181.752
176_F180_H1.206661.746
124_E127_K1.19181.724
67_T91_S1.160031.678
3_G33_F1.1591.677
177_C184_V1.153731.669
231_S261_E1.1431.654
88_L103_L1.140931.651
99_Y132_R1.140731.650
238_R268_F1.130951.636
104_L157_V1.117971.617
29_A263_L1.116851.616
47_R94_R1.114821.613
183_G248_S1.113641.611
59_P62_D1.103671.597
25_R256_P1.100521.592
100_I131_I1.096551.586
20_E52_A1.089341.576
230_V268_F1.086771.572
29_A260_E1.085581.571
25_R28_E1.083761.568
26_A31_I1.049961.519
38_D87_S1.033271.495
81_P124_E1.03261.494
81_P85_R1.02721.486
145_E176_F1.016091.470
15_S18_E1.012041.464
104_L185_I1.010661.462
276_A280_Q0.997751.444
20_E24_R0.98971.432
66_S104_L0.985661.426
69_V84_I0.974751.410
264_A267_D0.973171.408
127_K152_S0.970721.404
44_R47_R0.967861.400
260_E264_A0.963711.394
6_T34_F0.956651.384
220_A223_E0.950051.374
24_R55_K0.940471.361
125_L131_I0.939491.359
121_A124_E0.932511.349
34_F49_L0.931721.348
131_I134_I0.921471.333
27_L63_I0.921221.333
18_E21_A0.916891.327
23_L52_A0.916581.326
24_R28_E0.910251.317
145_E179_E0.907221.313
133_H156_D0.904341.308
88_L100_I0.901971.305
224_L235_L0.90081.303
230_V234_Q0.898741.300
22_I259_L0.890721.289
85_R89_E0.88871.286
175_E179_E0.888671.286
69_V103_L0.888331.285
64_F102_L0.880141.273
89_E93_E0.876681.268
86_E90_R0.872531.262
90_R93_E0.869381.258
253_A259_L0.868621.257
160_I184_V0.866431.254
16_E20_E0.863641.249
277_E280_Q0.855761.238
253_A258_H0.852641.234
172_G175_E0.847111.226
257_E260_E0.843611.221
85_R121_A0.842421.219
123_E153_I0.839241.214
50_G96_G0.838441.213
46_E91_S0.837391.212
140_S143_Q0.831321.203
126_K153_I0.824281.193
231_S234_Q0.822121.189
60_R97_T0.81981.186
223_E226_E0.815791.180
47_R51_R0.815681.180
80_S83_S0.808791.170
81_P121_A0.808321.169
219_D223_E0.804021.163
141_P176_F0.799311.156
51_R96_G0.798641.155
122_L134_I0.797531.154
230_V235_L0.792861.147
221_L232_P0.791141.145
165_L218_A0.786011.137
223_E227_E0.781191.130
17_E21_A0.777241.124
60_R99_Y0.771591.116
141_P145_E0.771571.116
164_L236_A0.771481.116
81_P120_E0.766141.108
259_L263_L0.765751.108
240_V249_V0.764641.106
220_A277_E0.761921.102
24_R52_A0.756731.095
33_F185_I0.75551.093
82_D86_E0.755161.093
95_L100_I0.753851.091
244_P275_L0.743411.076
126_K156_D0.74231.074
21_A25_R0.737741.067
145_E180_H0.735721.064
123_E152_S0.735461.064
89_E128_E0.731741.059
164_L278_I0.727431.052
21_A256_P0.726881.052
105_L122_L0.71271.031
222_R232_P0.712111.030
125_L130_K0.711741.030
228_H271_T0.711381.029
32_N64_F0.710541.028
33_F66_S0.707351.023
47_R93_E0.706811.023
178_R244_P0.70421.019
101_D132_R0.702671.017
53_L63_I0.700391.013
241_L265_A0.698341.010
81_P117_E0.698121.010
174_L178_R0.694861.005
175_E178_R0.691741.001
273_E276_A0.687220.994
257_E261_E0.684570.990
83_S86_E0.676720.979
46_E94_R0.671740.972
6_T49_L0.669770.969
245_G279_D0.664750.962
185_I248_S0.662520.959
276_A279_D0.659530.954
238_R265_A0.659210.954
234_Q261_E0.658250.952
123_E126_K0.657790.952
221_L278_I0.652380.944
234_Q264_A0.65190.943
117_E120_E0.651890.943
261_E264_A0.651790.943
102_L157_V0.651020.942
219_D222_R0.643830.931
227_E271_T0.642840.930
66_S185_I0.640020.926
23_L34_F0.636120.920
126_K133_H0.636090.920
108_P143_Q0.633360.916
125_L128_E0.625150.904
38_D83_S0.624810.904
157_V185_I0.619830.897
224_L228_H0.614440.889
144_L182_I0.613510.888
136_V144_L0.613020.887
118_V121_A0.609960.882
16_E48_I0.600710.869
138_N187_Y0.599080.867
4_L26_A0.593790.859
136_V155_P0.593430.859
237_L265_A0.592980.858
189_P251_V0.592570.857
171_E175_E0.592110.857
85_R88_L0.590960.855
92_L130_K0.590870.855
116_E146_A0.590830.855
235_L268_F0.589850.853
273_E277_E0.58950.853
38_D90_R0.589340.853
87_S90_R0.586570.849
230_V267_D0.585930.848
258_H261_E0.583970.845
178_R245_G0.583610.844
169_E184_V0.580820.840
51_R55_K0.571480.827
158_V177_C0.570810.826
36_T49_L0.559290.809
38_D78_D0.554370.802
3_G251_V0.552760.800
67_T103_L0.550750.797
255_S258_H0.550090.796
136_V158_V0.54820.793
92_L97_T0.54690.791
224_L274_E0.545910.790
174_L184_V0.545760.790
178_R246_V0.542160.784
177_C182_I0.541460.783
66_S102_L0.540250.782
134_I155_P0.539380.780
228_H235_L0.538980.780
270_L275_L0.538580.779
120_E124_E0.538190.779
21_A24_R0.53710.777
120_E123_E0.537050.777
121_A125_L0.536840.777
84_I125_L0.535480.775
218_A222_R0.532720.771
23_L27_L0.531580.769
86_E89_E0.530910.768
31_I263_L0.529810.767
225_A235_L0.528680.765
2_L241_L0.527390.763
92_L98_D0.527030.762
186_A189_P0.526940.762
78_D83_S0.522610.756
174_L245_G0.521660.755
220_A281_I0.519990.752
235_L270_L0.518050.749
230_V238_R0.517780.749
91_S103_L0.516480.747
9_L19_A0.516410.747
254_S258_H0.515380.746
123_E134_I0.514320.744
38_D94_R0.513740.743
116_E150_I0.512220.741
239_W279_D0.510290.738
183_G247_A0.507740.735
164_L239_W0.507240.734
115_L118_V0.507140.734
122_L126_K0.506330.733
79_Y105_L0.50530.731
85_R125_L0.504870.730
186_A249_V0.504660.730
88_L130_K0.504120.729
107_W138_N0.503970.729
136_V139_F0.503530.728
225_A228_H0.503170.728
238_R244_P0.50290.728
236_A240_V0.501590.726
29_A264_A0.500520.724
141_P173_L0.500270.724
142_E146_A0.496810.719
225_A232_P0.494970.716
61_D99_Y0.494270.715
162_Y170_E0.492580.713
25_R259_L0.4920.712
119_W147_A0.49190.712
119_W134_I0.48830.706
226_E229_G0.486540.704
119_W155_P0.486430.704
84_I118_V0.486070.703
22_I256_P0.484260.701
160_I173_L0.482570.698
33_F64_F0.482080.697
46_E50_G0.478630.692
176_F179_E0.476540.689
27_L59_P0.473850.686
87_S103_L0.473340.685
3_G250_I0.472450.684
252_G258_H0.472430.683
270_L274_E0.47240.683
241_L249_V0.471660.682
240_V247_A0.471490.682
186_A246_V0.469970.680
162_Y174_L0.459830.665
37_A106_H0.459380.665
224_L277_E0.459110.664
104_L135_G0.45890.664
2_L266_L0.458860.664
126_K131_I0.456540.661
69_V79_Y0.454450.657
105_L118_V0.454130.657
173_L177_C0.45050.652
79_Y118_V0.449870.651
84_I121_A0.449070.650
27_L34_F0.448550.649
16_E44_R0.447350.647
109_D112_E0.44620.646
29_A259_L0.44620.646
100_I103_L0.4450.644
17_E20_E0.444780.643
69_V87_S0.443330.641
189_P240_V0.44320.641
88_L92_L0.442930.641
34_F53_L0.441120.638
230_V264_A0.441050.638
6_T45_S0.440820.638
24_R59_P0.438610.635
76_E79_Y0.436450.631
116_E120_E0.435530.630
143_Q146_A0.435160.630
144_L177_C0.434260.628
37_A40_Y0.433310.627
216_E220_A0.433290.627
91_S94_R0.433060.627
22_I253_A0.432540.626
256_P259_L0.431070.624
80_S118_V0.430990.624
27_L62_D0.42980.622
55_K59_P0.427820.619
3_G248_S0.426380.617
136_V147_A0.425910.616
36_T45_S0.424810.615
4_L9_L0.424760.615
224_L281_I0.424430.614
224_L227_E0.421910.610
23_L49_L0.421310.610
139_F144_L0.420770.609
253_A262_N0.420040.608
238_R269_P0.419170.606
7_W188_S0.418350.605
237_L251_V0.418230.605
216_E219_D0.417780.604
92_L99_Y0.417260.604
32_N62_D0.416960.603
142_E145_E0.415910.602
49_L52_A0.415850.602
128_E131_I0.414840.600
103_L122_L0.412560.597
238_R266_L0.411610.596
102_L135_G0.406880.589
18_E256_P0.406710.588
194_L218_A0.406430.588
85_R130_K0.406060.587
82_D85_R0.403370.584
221_L236_A0.401990.582
233_A261_E0.401860.581
81_P84_I0.401670.581
134_I153_I0.401350.581
64_F133_H0.400410.579
19_A48_I0.398930.577
126_K134_I0.398520.577
135_G157_V0.395980.573
69_V105_L0.395820.573
52_A55_K0.394210.570
162_Y240_V0.393770.570
162_Y184_V0.391350.566
274_E277_E0.390260.565
235_L278_I0.389610.564
119_W123_E0.388240.562
235_L274_E0.387360.560
272_E275_L0.387280.560
123_E151_G0.383920.555
68_K106_H0.383790.555
103_L131_I0.383070.554
228_H268_F0.382710.554
51_R54_R0.382480.553
8_R192_G0.381640.552
108_P139_F0.380210.550
168_R171_E0.380140.550
89_E125_L0.379810.549
170_E175_E0.378710.548
237_L262_N0.377940.547
28_E256_P0.376990.545
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
1pyfA0.98231000.063
3n2tA0.97531000.064
3eauA0.99291000.067
3lutA0.99291000.067
1pz1A0.98591000.069
3v0sA0.97881000.077
3erpA0.99291000.078
1ur3M0.95051000.078
3n6qA0.99651000.081
1gveA0.98591000.083

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