GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Peptidase_S9 - Prolyl oligopeptidase family
Pfam: PF00326 (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: 213
Sequences: 56094
Seq/Len: 263.35
HH_delta: 0.054 (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
67_G91_A4.075914.460
180_L201_R2.782653.045
153_E183_P2.471912.705
68_I78_A2.339612.560
82_A92_A2.334712.555
148_L205_F2.145072.347
167_Y177_V2.129082.330
67_G206_F2.053632.247
23_R47_D1.945592.129
54_Y58_Q1.924292.105
13_Q203_L1.918972.100
153_E181_I1.811261.982
96_A155_D1.711151.872
160_P181_I1.671331.829
67_G90_K1.649241.805
23_R51_A1.615241.767
65_R90_K1.601181.752
194_N197_D1.592441.742
94_A97_G1.551121.697
148_L180_L1.538371.683
151_H163_S1.535491.680
182_F201_R1.516321.659
79_L94_A1.47791.617
164_L181_I1.466461.605
160_P164_L1.459861.597
80_L83_T1.45941.597
53_E88_R1.458831.596
49_V53_E1.457371.595
167_Y179_L1.442931.579
95_G198_W1.436131.571
201_R204_D1.434061.569
78_A92_A1.402671.535
9_L13_Q1.400841.533
151_H179_L1.398241.530
197_D201_R1.395461.527
81_A85_H1.389471.520
69_M95_G1.370241.499
147_V170_L1.357871.486
151_H181_I1.353111.481
93_V202_I1.352791.480
15_Y207_D1.315011.439
92_A147_V1.307421.431
75_G97_G1.289511.411
9_L199_Y1.288691.410
22_Y73_Y1.28341.404
80_L84_Q1.280581.401
67_G93_V1.271391.391
151_H160_P1.245511.363
165_R169_A1.244351.362
53_E57_K1.238621.355
148_L178_E1.238431.355
72_S187_H1.235371.352
200_E204_D1.219161.334
71_H96_A1.187081.299
182_F185_E1.182841.294
9_L203_L1.155591.264
70_G78_A1.150731.259
185_E194_N1.112351.217
164_L168_N1.096211.199
14_G203_L1.088911.191
22_Y77_L1.087171.190
167_Y171_R1.074871.176
165_R168_N1.069521.170
178_E201_R1.066111.166
164_L179_L1.062961.163
154_N184_G1.060031.160
91_A146_P1.058081.158
203_L207_D1.05291.152
21_N26_G1.051441.150
62_D65_R1.044941.143
197_D200_E1.040581.139
52_I89_F1.037381.135
18_L55_L1.033521.131
56_I88_R1.033121.130
15_Y67_G1.030791.128
53_E85_H1.029281.126
85_H88_R1.028031.125
54_Y57_K1.027031.124
49_V84_Q1.026231.123
49_V85_H1.020691.117
47_D51_A1.0191.115
198_W202_I1.013851.109
22_Y25_S1.006321.101
9_L12_S1.00451.099
46_D84_Q0.999251.093
18_L51_A0.996381.090
93_V148_L0.991011.084
13_Q207_D0.987521.080
164_L167_Y0.986061.079
137_P140_N0.985581.078
150_I182_F0.985261.078
69_M93_V0.984941.078
63_P66_I0.983141.076
126_P130_R0.982611.075
50_A53_E0.975651.068
94_A149_I0.962281.053
56_I66_I0.959881.050
153_E160_P0.939891.028
93_V206_F0.936911.025
52_I66_I0.934751.023
49_V81_A0.914691.001
162_Q165_R0.911170.997
8_Q12_S0.90860.994
51_A55_L0.897560.982
47_D50_A0.89590.980
150_I180_L0.893540.978
171_R177_V0.890720.975
149_I177_V0.884590.968
51_A54_Y0.876270.959
170_L177_V0.87390.956
182_F197_D0.866840.948
48_V81_A0.860480.941
70_G75_G0.858820.940
66_I89_F0.855490.936
70_G74_G0.844360.924
151_H158_V0.84350.923
71_H95_G0.84020.919
153_E184_G0.838710.918
44_D47_D0.825070.903
150_I198_W0.824570.902
50_A54_Y0.817140.894
15_Y206_F0.81390.891
52_I81_A0.812270.889
91_A205_F0.810810.887
79_L166_L0.8090.885
20_P51_A0.802390.878
45_V80_L0.800980.876
127_E131_E0.799020.874
92_A145_P0.797240.872
149_I163_S0.790750.865
95_G202_I0.790490.865
81_A89_F0.788390.863
127_E130_R0.788110.862
161_S164_L0.78690.861
125_N128_F0.782870.857
180_L197_D0.775140.848
82_A145_P0.77220.845
163_S167_Y0.770650.843
46_D50_A0.763910.836
39_D43_A0.760260.832
69_M202_I0.757050.828
128_F131_E0.756120.827
149_I167_Y0.745150.815
73_Y77_L0.739290.809
66_I90_K0.737280.807
199_Y202_I0.733990.803
68_I89_F0.733750.803
73_Y76_Y0.714870.782
9_L196_R0.711820.779
91_A148_L0.708960.776
81_A88_R0.706540.773
48_V51_A0.705550.772
20_P48_V0.705410.772
68_I81_A0.70210.768
96_A152_G0.702010.768
143_I170_L0.695250.761
15_Y203_L0.692950.758
52_I56_I0.691330.756
76_Y98_V0.68320.748
196_R200_E0.680290.744
149_I166_L0.679410.743
78_A82_A0.673480.737
172_K177_V0.667560.730
41_G44_D0.66680.730
16_A63_P0.659930.722
133_S137_P0.658340.720
117_L120_G0.654040.716
39_D42_Q0.648060.709
136_S139_D0.647450.708
163_S179_L0.645070.706
159_P162_Q0.63980.700
76_Y79_L0.636330.696
200_E203_L0.633670.693
14_G17_V0.627780.687
192_P195_R0.626740.686
72_S96_A0.625210.684
199_Y203_L0.625140.684
177_V180_L0.624030.683
56_I63_P0.620670.679
75_G94_A0.619630.678
132_L135_I0.618560.677
195_R199_Y0.618140.676
204_D207_D0.61350.671
66_I88_R0.611490.669
169_A172_K0.608370.666
121_D124_D0.605250.662
202_I206_F0.604560.661
155_D158_V0.603380.660
148_L201_R0.602940.660
91_A94_A0.599630.656
168_N172_K0.596420.653
100_D103_S0.595570.652
55_L58_Q0.59480.651
74_G78_A0.593350.649
45_V51_A0.592560.648
104_Y107_T0.588990.644
10_L17_V0.587120.642
43_A46_D0.585450.641
42_Q46_D0.583980.639
76_Y80_L0.578940.633
93_V150_I0.578890.633
9_L200_E0.577640.632
154_N186_G0.573650.628
130_R133_S0.573090.627
161_S165_R0.572620.627
10_L202_I0.570760.624
135_I138_A0.567790.621
25_S73_Y0.564450.618
46_D49_V0.562650.616
178_E181_I0.561180.614
44_D73_Y0.560840.614
91_A206_F0.559180.612
71_H189_F0.556390.609
149_I170_L0.553290.605
10_L15_Y0.55170.604
40_W43_A0.549750.602
16_A20_P0.548730.600
64_D90_K0.547760.599
134_P137_P0.547170.599
14_G207_D0.546830.598
53_E56_I0.545730.597
166_L170_L0.545370.597
126_P129_Y0.544520.596
133_S136_S0.543160.594
118_E121_D0.541680.593
70_G82_A0.540090.591
49_V52_I0.539910.591
150_I201_R0.536730.587
178_E182_F0.535820.586
90_K93_V0.534480.585
129_Y132_L0.532610.583
86_P89_F0.531950.582
94_A147_V0.531250.581
16_A19_V0.529490.579
17_V20_P0.529220.579
148_L151_H0.527460.577
154_N185_E0.525860.575
82_A89_F0.524160.574
103_S106_G0.524140.573
124_D128_F0.522690.572
83_T143_I0.522650.572
45_V48_V0.521720.571
95_G150_I0.521140.570
143_I146_P0.518320.567
149_I179_L0.516570.565
57_K88_R0.512920.561
160_P179_L0.512560.561
10_L14_G0.512140.560
43_A48_V0.508530.556
180_L204_D0.507750.556
163_S166_L0.50660.554
40_W44_D0.503680.551
168_N171_R0.501390.549
79_L170_L0.500350.547
192_P199_Y0.498560.545
96_A151_H0.497960.545
18_L63_P0.497540.544
126_P132_L0.496920.544
131_E134_P0.496750.544
143_I147_V0.494830.541
49_V88_R0.494290.541
66_I81_A0.493360.540
136_S140_N0.491250.538
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
3o4hA0.971899.90.054
4a5sA0.971899.90.068
4hxfB0.971899.90.071
2z3zA0.943799.90.081
3azoA0.985999.90.083
2ecfA0.953199.90.084
1xfdA0.957799.90.085
2bklA0.990699.90.094
1z68A0.957799.90.095
4hvtA0.981299.90.101

Page generated in 0.0155 seconds.