GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
SGL - SMP-30GluconolaconaseLRE-like region
Pfam: PF08450 (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: CL0186
Length: 246
Sequences: 64601
Seq/Len: 262.61
HH_delta: 0.035 (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
62_I65_V2.416143.409
92_A140_A1.638352.311
8_D11_D1.577432.226
48_D93_V1.527752.155
46_A92_A1.524812.151
208_V219_E1.522572.148
66_D69_T1.510622.131
140_A190_A1.477412.084
94_D141_F1.453552.051
28_D31_T1.410511.990
16_W26_R1.399551.975
208_V216_L1.351361.907
142_S191_V1.296421.829
84_P102_T1.290411.821
188_G201_D1.285251.813
17_V27_V1.274051.798
210_F216_L1.269421.791
162_D165_A1.26171.780
138_G152_D1.219041.720
90_D103_D1.212661.711
199_V209_V1.209941.707
196_N209_V1.200591.694
25_Y34_V1.177161.661
192_D196_N1.148481.620
140_A189_L1.14391.614
206_R219_E1.125951.589
48_D51_D1.105861.560
140_A191_V1.093591.543
94_D98_N1.092761.542
8_D47_F1.082671.528
190_A230_C1.075281.517
149_Y160_R1.068351.507
115_G118_Y1.06761.506
200_A210_F1.058351.493
92_A139_I1.051671.484
61_G65_V1.05161.484
8_D13_R1.047181.477
115_G119_R1.041971.470
72_V75_L1.041191.469
16_W47_F1.036991.463
46_A91_V1.02231.442
216_L219_E1.009721.425
142_S146_K1.001151.412
44_G57_A0.980781.384
48_D55_Y0.972911.373
84_P88_P0.96311.359
89_N105_G0.959591.354
158_I200_A0.957371.351
46_A93_V0.947211.336
55_Y93_V0.944541.333
92_A141_F0.937111.322
44_G90_D0.9361.321
38_D41_G0.935911.320
143_P191_V0.932891.316
48_D53_R0.925671.306
151_A161_F0.915421.292
13_R26_R0.87681.237
132_G151_A0.848411.197
53_R56_V0.842361.188
159_W168_G0.831511.173
101_V141_F0.824651.163
179_F182_G0.820461.158
142_S149_Y0.820451.158
27_V34_V0.818161.154
188_G229_N0.817421.153
223_P227_P0.812741.147
187_D203_G0.812391.146
149_Y191_V0.810451.143
90_D102_T0.808471.141
138_G188_G0.806931.138
78_L84_P0.80591.137
95_P141_F0.805741.137
227_P230_C0.804491.135
26_R35_E0.803061.133
159_W178_D0.801631.131
58_D61_G0.800941.130
18_D42_P0.799171.128
24_I56_V0.798051.126
15_Y26_R0.794081.120
29_P32_G0.783881.106
18_D21_G0.770661.087
150_V191_V0.767861.083
142_S145_G0.761571.074
146_K164_D0.758861.071
119_R127_T0.757961.069
182_G200_A0.756291.067
42_P45_M0.754491.064
209_V218_R0.750951.059
89_N137_N0.745781.052
118_Y126_V0.735781.038
94_D97_G0.73461.036
137_N187_D0.733581.035
192_D198_W0.732621.034
19_I23_R0.732581.034
98_N119_R0.731581.032
165_A168_G0.730761.031
175_V178_D0.729921.030
37_I40_P0.725911.024
141_F163_L0.725441.024
18_D23_R0.72361.021
137_N154_F0.722141.019
16_W45_M0.72151.018
143_P195_G0.718961.014
192_D195_G0.718631.014
198_W209_V0.71831.013
152_D155_N0.716041.010
50_P53_R0.715051.009
94_D100_Y0.715031.009
201_D204_G0.714051.007
100_Y119_R0.713021.006
84_P104_S0.711931.004
117_V151_A0.70911.000
101_V139_I0.708511.000
24_I45_M0.702190.991
118_Y128_V0.700840.989
152_D186_P0.70080.989
160_R191_V0.700570.988
44_G91_V0.695270.981
206_R221_E0.690960.975
132_G136_P0.686220.968
31_T35_E0.684230.965
192_D197_L0.68270.963
155_N159_W0.679190.958
118_Y129_V0.674750.952
158_I189_L0.672910.949
34_V37_I0.671180.947
13_R28_D0.67030.946
90_D138_G0.668990.944
26_R47_F0.663070.936
136_P139_I0.660490.932
56_V64_V0.66030.932
201_D208_V0.659080.930
202_W206_R0.657060.927
163_L166_D0.657040.927
150_V160_R0.656810.927
211_D217_L0.656690.927
176_F179_F0.65490.924
126_V129_V0.653170.922
207_I230_C0.653010.921
28_D32_G0.651330.919
48_D52_G0.649030.916
196_N213_D0.647170.913
8_D12_G0.646480.912
138_G189_L0.644940.910
150_V198_W0.643840.908
8_D15_Y0.643670.908
151_A159_W0.642310.906
103_D106_G0.640440.904
53_R64_V0.64020.903
7_W29_P0.635060.896
25_Y36_V0.633690.894
43_N89_N0.633690.894
17_V25_Y0.628660.887
129_V132_G0.622470.878
69_T73_T0.621580.877
196_N211_D0.619580.874
211_D215_K0.61920.874
115_G120_I0.616940.870
161_F168_G0.614470.867
21_G25_Y0.614350.867
197_L200_A0.611050.862
65_V72_V0.609750.860
57_A88_P0.606770.856
106_G116_S0.60620.855
67_P70_G0.605380.854
201_D227_P0.602510.850
19_I22_G0.599240.845
116_S128_V0.59430.838
191_V212_P0.594170.838
125_K128_V0.591950.835
25_Y37_I0.591490.835
32_G35_E0.590520.833
150_V161_F0.58870.831
157_R178_D0.587080.828
88_P91_V0.586470.827
95_P145_G0.586340.827
28_D35_E0.58370.824
56_V59_S0.583060.823
74_V77_D0.5790.817
168_G175_V0.578780.817
42_P58_D0.577190.814
47_F67_P0.576930.814
19_I25_Y0.573650.809
119_R122_P0.573080.809
103_D136_P0.570390.805
59_S62_I0.566540.799
57_A61_G0.565490.798
66_D73_T0.563160.795
194_D197_L0.56140.792
201_D230_C0.559370.789
58_D63_A0.557830.787
18_D45_M0.557490.787
85_F88_P0.554510.782
116_S129_V0.554060.782
90_D139_I0.554010.782
187_D228_T0.54830.774
133_L136_P0.546780.771
8_D14_L0.545540.770
177_I180_P0.543020.766
102_T120_I0.542160.765
28_D33_E0.539750.762
120_I126_V0.536310.757
43_N59_S0.535580.756
84_P106_G0.534590.754
44_G58_D0.534570.754
185_Y203_G0.532250.751
64_V75_L0.528920.746
7_W15_Y0.528230.745
62_I66_D0.527830.745
18_D25_Y0.526730.743
13_R30_D0.526590.743
188_G230_C0.524970.741
152_D157_R0.52410.739
152_D189_L0.522770.738
204_G208_V0.52250.737
55_Y100_Y0.522360.737
66_D71_K0.519160.732
14_L17_V0.518120.731
51_D54_L0.517580.730
200_A208_V0.516830.729
146_K162_D0.515940.728
128_V131_D0.513680.725
202_W208_V0.513660.725
55_Y91_V0.513320.724
91_V102_T0.507820.716
54_L57_A0.507810.716
119_R141_F0.506620.715
134_G154_F0.506390.714
100_Y141_F0.504650.712
14_L26_R0.503880.711
162_D166_D0.502340.709
73_T76_A0.502140.708
53_R66_D0.501070.707
15_Y18_D0.500060.706
23_R36_V0.499470.705
14_L18_D0.499220.704
186_P189_L0.498010.703
199_V230_C0.497360.702
61_G64_V0.496240.700
182_G202_W0.496230.700
14_L99_L0.495850.700
24_I57_A0.495240.699
152_D159_W0.49450.698
67_P72_V0.493890.697
197_L209_V0.492750.695
55_Y65_V0.491830.694
103_D139_I0.490750.692
11_D14_L0.490320.692
132_G153_S0.489730.691
94_D99_L0.488830.690
16_W55_Y0.485080.684
126_V130_A0.484760.684
127_T130_A0.483840.683
209_V220_I0.483780.683
56_V60_G0.483560.682
124_G129_V0.483250.682
36_V39_L0.48050.678
188_G200_A0.480290.678
162_D167_G0.47820.675
150_V189_L0.477950.674
69_T72_V0.475140.670
35_E39_L0.4740.669
153_S156_G0.472540.667
116_S119_R0.47220.666
52_G68_D0.471140.665
197_L201_D0.469990.663
101_V119_R0.468840.661
160_R212_P0.468810.661
28_D34_V0.466420.658
182_G186_P0.466080.658
135_F154_F0.465790.657
162_D168_G0.465730.657
214_G217_L0.465190.656
93_V122_P0.464720.656
178_D182_G0.462520.653
211_D214_G0.462160.652
159_W175_V0.461150.651
132_G161_F0.460930.650
66_D72_V0.460230.649
153_S157_R0.457430.645
63_A74_V0.455640.643
73_T77_D0.45460.641
115_G122_P0.453430.640
50_P97_G0.450890.636
45_M48_D0.449260.634
15_Y29_P0.448130.632
141_F191_V0.447250.631
148_L151_A0.44590.629
13_R29_P0.445440.628
63_A75_L0.443590.626
131_D161_F0.442190.624
60_G63_A0.442150.624
99_L197_L0.441870.623
53_R73_T0.438890.619
93_V141_F0.438140.618
98_N123_D0.436810.616
66_D70_G0.436590.616
58_D62_I0.436150.615
17_V21_G0.435520.614
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
4gqbB0.906599.90.035
2ymuA0.898499.90.043
1vyhC0.906599.90.065
1nr0A0.926899.90.067
1vyhC0.906599.90.068
3ow8A0.906599.90.068
2ymuA0.902499.90.069
1nr0A0.922899.90.073
3dm0A0.910699.90.079
2ynnA0.914699.90.08

Page generated in 0.0191 seconds.