GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Hydrolase - haloacid dehalogenase-like hydrolase
Pfam: PF00702 (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: CL0137
Length: 215
Sequences: 22643
Seq/Len: 105.32
HH_delta: 0.259 (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
2_D197_E2.661274.325
154_E158_S2.158163.508
1_I199_A1.898283.085
186_R190_E1.757722.857
202_G207_D1.683552.736
187_I190_E1.555562.528
133_K137_Q1.525232.479
188_I198_V1.448132.354
186_R189_K1.439422.339
114_V119_L1.364362.217
150_T157_A1.32142.148
2_D196_G1.188641.932
185_L213_A1.181781.921
14_Q127_P1.176861.913
5_C149_L1.135361.845
200_M211_L1.122161.824
4_I199_A1.10451.795
172_F187_I1.102941.793
172_F175_V1.101231.790
3_A193_V1.099441.787
49_F53_H1.04651.701
138_E142_A1.044011.697
192_Q213_A1.030211.674
137_Q141_E1.030151.674
14_Q18_S1.026111.668
209_P213_A1.001281.627
181_P186_R0.99761.621
8_K13_T0.986481.603
185_L189_K0.98411.599
188_I195_P0.982331.597
145_K168_D0.964631.568
194_K197_E0.959841.560
5_C198_V0.95971.560
200_M214_A0.954471.551
14_Q130_P0.929521.511
3_A191_L0.911871.482
29_A33_A0.903591.469
3_A147_A0.895341.455
6_F146_V0.891371.449
178_K182_K0.88961.446
158_S162_K0.876831.425
140_K146_V0.872831.419
30_I33_A0.849221.380
6_F201_V0.846351.376
192_Q215_G0.818551.330
134_E137_Q0.81691.328
98_V101_I0.81281.321
200_M210_A0.8121.320
49_F52_N0.808921.315
30_I34_L0.799961.300
5_C200_M0.797591.296
82_P86_H0.790791.285
131_G134_E0.782321.271
25_E29_A0.774511.259
4_I144_I0.764481.242
134_E138_E0.757091.230
5_C191_L0.756731.230
168_D172_F0.754521.226
6_F12_L0.736761.197
154_E174_R0.727991.183
138_E141_E0.726931.181
26_A30_I0.719761.170
161_A171_V0.715531.163
140_K167_F0.712791.158
187_I191_L0.709881.154
189_K213_A0.707741.150
111_V118_F0.703661.144
24_N53_H0.697041.133
171_V175_V0.693091.126
178_K181_P0.691791.124
83_E86_H0.69011.122
159_A163_Q0.678661.103
149_L187_I0.674191.096
26_A29_A0.672361.093
132_A136_L0.663351.078
11_T201_V0.661241.075
100_E104_S0.660791.074
3_A145_K0.660051.073
195_P198_V0.656741.067
44_K48_E0.652361.060
29_A32_A0.648461.054
131_G135_A0.646891.051
99_E111_V0.632381.028
48_E51_K0.627111.019
4_I201_V0.626981.019
147_A191_L0.621381.010
162_K167_F0.620781.009
189_K193_V0.620761.009
5_C187_I0.617851.004
205_V209_P0.616431.002
1_I197_E0.613570.997
188_I193_V0.611510.994
6_F46_I0.610870.993
3_A198_V0.610170.992
106_G109_V0.594780.967
19_V49_F0.584850.951
47_V50_A0.582850.947
85_I113_A0.579850.942
48_E52_N0.568780.924
139_L144_I0.567050.922
167_F172_F0.564530.917
15_G126_D0.563680.916
27_A120_G0.562640.914
81_S84_W0.560910.912
96_D100_E0.560580.911
193_V198_V0.559770.910
97_L100_E0.558810.908
3_A196_G0.555020.902
179_P182_K0.551490.896
195_P213_A0.550980.895
185_L195_P0.546380.888
147_A187_I0.541910.881
208_A212_K0.541530.880
99_E103_E0.540960.879
181_P185_L0.53260.866
197_E215_G0.529260.860
94_S97_L0.5290.860
152_D157_A0.528980.860
209_P212_K0.526590.856
5_C147_A0.525610.854
148_I157_A0.524990.853
145_K173_A0.524550.853
28_L32_A0.521680.848
4_I139_L0.520920.847
195_P215_G0.516390.839
14_Q17_M0.516080.839
12_L132_A0.513210.834
8_K152_D0.511450.831
125_R128_L0.510720.830
140_K143_G0.506080.822
153_N156_T0.505530.822
94_S98_V0.499790.812
80_G84_W0.499670.812
182_K186_R0.497480.809
109_V121_L0.49570.806
110_I124_L0.494180.803
8_K157_A0.494160.803
116_L120_G0.493730.802
210_A214_A0.493230.802
18_S127_P0.493050.801
188_I214_A0.492820.801
93_I96_D0.491890.799
200_M207_D0.489420.795
101_I105_Q0.486810.791
9_T203_D0.486620.791
137_Q171_V0.486450.791
32_A50_A0.476470.774
196_G215_G0.471190.766
82_P111_V0.468020.761
28_L46_I0.46680.759
189_K192_Q0.464420.755
11_T207_D0.464170.754
121_L124_L0.462990.752
102_Q123_G0.460240.748
18_S48_E0.459380.747
155_S158_S0.458810.746
145_K196_G0.456940.743
27_A31_A0.456430.742
95_P99_E0.455630.741
203_D206_N0.453820.738
117_I120_G0.452420.735
125_R163_Q0.450830.733
102_Q107_R0.447390.727
81_S85_I0.447070.727
9_T152_D0.445170.724
85_I89_G0.442460.719
129_R132_A0.440440.716
114_V117_I0.44030.716
7_D11_T0.440230.715
2_D144_I0.437720.711
47_V51_K0.436140.709
2_D193_V0.434620.706
159_A162_K0.433850.705
136_L146_V0.433150.704
156_T160_I0.432260.703
31_A112_L0.431220.701
103_E109_V0.430010.699
161_A166_I0.429660.698
136_L140_K0.429630.698
85_I90_I0.429630.698
7_D203_D0.429260.698
2_D195_P0.428870.697
205_V208_A0.422530.687
137_Q140_K0.421110.684
211_L214_A0.419640.682
9_T15_G0.419620.682
8_K160_I0.418890.681
107_R123_G0.415810.676
193_V197_E0.412850.671
168_D171_V0.412460.670
84_W88_L0.412150.670
147_A168_D0.409580.666
25_E28_L0.406010.660
97_L101_I0.405850.660
28_L31_A0.405240.659
112_L120_G0.401550.653
44_K47_V0.39460.641
83_E87_E0.394220.641
149_L200_M0.393570.640
24_N27_A0.393560.640
157_A160_I0.391610.636
34_L43_G0.391460.636
84_W89_G0.39140.636
1_I144_I0.388560.631
185_L188_I0.388470.631
107_R110_I0.387710.630
190_E194_K0.385750.627
85_I88_L0.383670.624
8_K12_L0.382850.622
171_V174_R0.382540.622
101_I104_S0.380680.619
200_M206_N0.378820.616
140_K173_A0.377740.614
83_E88_L0.375860.611
86_H89_G0.375160.610
84_W87_E0.37380.608
152_D202_G0.372730.606
128_L164_L0.372690.606
118_F121_L0.367130.597
4_I146_V0.364940.593
9_T204_G0.364210.592
181_P213_A0.364040.592
210_A213_A0.363960.592
32_A46_I0.36370.591
100_E103_E0.363650.591
208_A211_L0.363480.591
181_P209_P0.362880.590
11_T202_G0.362340.589
6_F135_A0.360190.585
19_V27_A0.359340.584
149_L175_V0.357680.581
132_A135_A0.357440.581
151_G204_G0.356570.580
18_S52_N0.355540.578
12_L148_I0.354570.576
1_I4_I0.354150.576
8_K148_I0.354140.576
24_N28_L0.353950.575
103_E107_R0.350970.570
139_L201_V0.350440.570
12_L164_L0.349760.568
180_E185_L0.349250.568
211_L215_G0.347810.565
93_I97_L0.346930.564
188_I191_L0.346840.564
82_P85_I0.346790.564
95_P98_V0.346010.562
12_L136_L0.345950.562
9_T150_T0.34560.562
93_I99_E0.344430.560
9_T13_T0.343680.559
90_I93_I0.342040.556
93_I98_V0.339930.552
33_A117_I0.338690.550
103_E106_G0.337670.549
198_V215_G0.337140.548
206_N210_A0.33710.548
206_N209_P0.336650.547
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
3kbbA0.790799.80.259
2ah5A0.772199.80.296
4gibA0.809399.80.298
4ex6A0.790799.80.302
2yj3A0.879199.80.304
3nasA0.899.80.309
2hi0A0.874499.80.309
3mc1A0.78699.80.309
3a1cA0.953599.80.311
4g9bA0.899.80.313

Page generated in 0.0288 seconds.