GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Abhydrolase_2 - PhospholipaseCarboxylesterase
Pfam: PF02230 (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: CL0028
Length: 216
Sequences: 42499
Seq/Len: 196.75
HH_delta: 0.07 (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
108_F132_G4.149914.780
123_A133_V2.241362.582
164_D194_P2.213352.549
109_L119_A1.89532.183
178_A188_V1.873842.158
191_H207_D1.838452.118
164_D192_E1.791192.063
16_L44_R1.673421.927
135_A138_G1.650841.901
106_R131_A1.639351.888
137_S166_D1.621111.867
91_D95_D1.578741.818
51_P89_R1.574071.813
22_G113_S1.559211.796
108_F131_A1.516031.746
175_E192_E1.506781.736
171_F192_E1.483331.709
162_H174_A1.432061.649
159_L191_H1.419181.635
19_L110_G1.410681.625
91_D122_L1.400831.613
171_F175_E1.370071.578
158_I181_L1.356751.563
91_D126_Y1.350231.555
121_Y125_R1.349011.554
159_L211_F1.34631.551
122_L126_Y1.342661.546
16_L46_I1.30931.508
116_A138_G1.307461.506
38_L42_N1.295691.492
94_I107_I1.293481.490
14_K44_R1.249781.440
162_H190_F1.228781.415
110_G136_L1.220251.405
108_F134_V1.210981.395
121_Y124_L1.209291.393
178_A190_F1.204841.388
95_D129_P1.202391.385
193_Y207_D1.198871.381
133_V158_I1.195621.377
120_L135_A1.190441.371
162_H171_F1.175281.354
178_A182_K1.16111.337
15_P106_R1.15841.334
17_V110_G1.148081.322
175_E179_E1.146961.321
119_A133_V1.136111.309
15_P108_F1.128921.300
27_E49_R1.112331.281
207_D210_E1.098651.265
92_E96_E1.097161.264
161_I193_Y1.090091.256
159_L189_E1.084911.250
23_Y114_Q1.082421.247
193_Y196_G1.072111.235
20_L119_A1.058611.219
113_S198_H1.055991.216
132_G157_P1.050981.211
110_G134_V1.044571.203
204_E207_D1.043431.202
108_F212_L1.026541.182
20_L109_L1.024291.180
25_D29_L1.0131.167
89_R93_L1.009031.162
111_G119_A1.003981.156
103_D106_R1.002381.155
162_H192_E1.000041.152
18_I107_I0.995821.147
82_G85_E0.994891.146
164_D171_F0.99461.146
126_Y129_P0.993081.144
89_R92_E0.992941.144
91_D129_P0.992671.143
206_R210_E0.987131.137
93_L97_E0.985621.135
205_L211_F0.984161.134
112_F137_S0.983891.133
24_G113_S0.980551.129
17_V43_T0.980431.129
176_K180_F0.973451.121
88_E125_R0.95461.100
107_I130_L0.944261.088
175_E190_F0.939071.082
87_A121_Y0.923061.063
164_D195_G0.918331.058
20_L50_A0.917571.057
93_L96_E0.911931.050
116_A135_A0.908491.046
136_L208_L0.900961.038
175_E178_A0.896891.033
92_E95_D0.889421.024
135_A160_I0.888471.023
90_L122_L0.887741.023
19_L30_F0.884131.018
104_P107_I0.879621.013
88_E92_E0.879421.013
95_D126_Y0.876451.009
41_P209_R0.876221.009
176_K179_E0.873251.006
16_L107_I0.868231.000
109_L130_L0.86630.998
111_G115_G0.836820.964
43_T108_F0.836780.964
39_A42_N0.824130.949
173_W176_K0.820440.945
84_E125_R0.819370.944
15_P43_T0.814870.939
21_H50_A0.812090.935
165_E195_G0.810990.934
20_L48_P0.808420.931
20_L90_L0.808310.931
134_V159_L0.807250.930
204_E211_F0.80580.928
88_E91_D0.803940.926
111_G116_A0.787830.907
157_P187_N0.786950.906
50_A118_M0.781330.900
137_S163_G0.779360.898
114_Q118_M0.772020.889
151_E154_A0.766240.883
196_G200_I0.765760.882
160_I178_A0.761970.878
86_S89_R0.761380.877
134_V208_L0.757280.872
208_L211_F0.754920.870
134_V212_L0.754740.869
112_F136_L0.751540.866
179_E183_A0.748980.863
112_F199_E0.742810.856
27_E47_S0.739770.852
162_H169_V0.739150.851
85_E89_R0.730540.841
120_L177_T0.727630.838
174_A178_A0.725750.836
91_D125_R0.721050.831
132_G159_L0.7210.830
89_R96_E0.719940.829
85_E88_E0.717290.826
32_L35_E0.716750.826
134_V161_I0.712150.820
205_L209_R0.708840.816
160_I188_V0.707030.814
31_A35_E0.702520.809
20_L118_M0.693220.798
19_L45_F0.692610.798
17_V108_F0.692510.798
87_A125_R0.688850.793
182_K188_V0.687920.792
181_L186_A0.683770.788
16_L104_P0.682520.786
30_F34_A0.672940.775
84_E88_E0.672410.774
94_I130_L0.670880.773
160_I174_A0.669530.771
208_L212_L0.669480.771
15_P131_A0.668140.770
28_D31_A0.662180.763
44_R47_S0.659720.760
161_I191_H0.658180.758
136_L161_I0.655460.755
30_F33_L0.654510.754
203_E207_D0.65390.753
202_P205_L0.652530.752
160_I177_T0.651610.751
181_L188_V0.651580.750
81_A85_E0.648290.747
180_F183_A0.64820.747
42_N45_F0.639840.737
172_E175_E0.639240.736
204_E208_L0.637470.734
48_P90_L0.637260.734
165_E196_G0.633230.729
15_P105_S0.631360.727
90_L94_I0.62970.725
205_L208_L0.626280.721
33_L205_L0.61250.705
51_P59_G0.611110.704
34_A47_S0.610620.703
48_P51_P0.607890.700
40_L43_T0.605740.698
39_A45_F0.602960.694
47_S50_A0.60020.691
25_D117_A0.598650.690
122_L130_L0.598420.689
172_E176_K0.596080.687
13_A44_R0.596010.686
38_L41_P0.593780.684
117_A120_L0.593340.683
85_E92_E0.592520.682
81_A86_S0.58830.678
46_I93_L0.587360.677
162_H166_D0.584170.673
87_A90_L0.583180.672
24_G114_Q0.583070.672
166_D169_V0.579070.667
117_A121_Y0.576430.664
84_E87_A0.574520.662
126_Y130_L0.572950.660
112_F201_S0.572390.659
50_A114_Q0.570840.657
188_V191_H0.569730.656
29_L112_F0.569660.656
31_A47_S0.569660.656
46_I49_R0.568390.655
191_H211_F0.56480.651
19_L47_S0.564370.650
91_D94_I0.562510.648
119_A123_A0.561330.647
45_F48_P0.560970.646
30_F112_F0.559740.645
38_L43_T0.557920.643
122_L129_P0.557750.642
149_R152_A0.556150.641
143_E147_E0.556130.641
23_Y26_S0.553620.638
18_I46_I0.55290.637
107_I131_A0.550610.634
114_Q117_A0.547520.631
33_L209_R0.546620.630
207_D211_F0.546330.629
166_D198_H0.544230.627
117_A139_Y0.539460.621
45_F49_R0.539150.621
115_G119_A0.535790.617
182_K186_A0.535620.617
170_P173_W0.533270.614
21_H48_P0.532660.614
87_A91_D0.531510.612
18_I109_L0.529830.610
109_L122_L0.523940.603
21_H26_S0.522890.602
165_E197_G0.520640.600
31_A34_A0.520090.599
29_L199_E0.51910.598
174_A190_F0.518540.597
86_S114_Q0.516260.595
18_I94_I0.514140.592
133_V156_T0.512160.590
179_E182_K0.511150.589
196_G204_E0.507260.584
42_N209_R0.505960.583
177_T181_L0.504220.581
206_R209_R0.503640.580
161_I204_E0.503620.580
142_P145_E0.502080.578
123_A156_T0.501680.578
189_E207_D0.499610.575
137_S200_I0.498210.574
82_G89_R0.49580.571
97_E104_P0.495260.570
141_P144_S0.495090.570
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
4f21A0.990799.90.07
1auoA0.990799.90.072
4h0cA0.930699.90.086
4fhzA0.972299.90.089
3u0vA0.995499.90.09
1fj2A0.995499.90.091
3cn9A0.986199.90.105
3o4hA0.925999.90.168
3b5eA0.925999.90.174
4a5sA0.930699.90.175

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