GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Cutinase - Cutinase
Pfam: PF01083 (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: 179
Sequences: 2120
Seq/Len: 11.84
HH_delta: 0.338 (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
99_L115_V0.344382.576
84_V114_A0.309252.313
92_A117_L0.291332.179
117_L120_D0.290832.176
73_E77_R0.288242.156
96_G120_D0.287412.150
120_D140_S0.268822.011
85_L95_V0.268652.010
14_T90_Q0.266331.992
67_L95_V0.254491.904
75_A111_R0.25241.888
92_A120_D0.246491.844
142_C149_C0.228921.713
7_H43_Q0.22511.684
9_I70_L0.216021.616
11_A95_V0.213351.596
72_E76_A0.209221.565
46_E66_N0.207691.554
87_G91_G0.205471.537
74_Y83_I0.204271.528
48_P66_N0.204121.527
64_V97_D0.199971.496
6_V84_V0.196061.467
152_S155_S0.194411.454
66_N70_L0.194351.454
73_E76_A0.188991.414
68_V72_E0.188231.408
69_R73_E0.187561.403
140_S143_N0.187381.402
7_H41_A0.184781.382
156_L160_L0.183241.371
63_G94_V0.180821.353
50_S53_P0.178921.338
79_P82_K0.178271.334
11_A67_L0.177551.328
68_V101_G0.175281.311
13_G89_S0.17381.300
82_K113_A0.170741.277
67_L98_A0.170651.277
78_C142_C0.170491.275
65_A69_R0.165941.241
68_V98_A0.161971.212
85_L112_I0.161031.205
88_Y118_F0.160231.199
108_V111_R0.159671.194
7_H81_T0.158751.188
78_C81_T0.156311.169
116_V139_R0.15491.159
96_G117_L0.152951.144
93_M123_R0.151031.130
75_A83_I0.150151.123
26_P30_A0.148191.109
10_F86_A0.147391.103
99_L116_V0.145351.087
75_A108_V0.144641.082
9_I71_I0.1441.077
49_A90_Q0.141831.061
11_A47_Y0.140281.049
69_R72_E0.139781.046
14_T121_P0.139581.044
7_H70_L0.138451.036
72_E108_V0.13841.035
6_V35_P0.138391.035
47_Y63_G0.138041.033
87_G99_L0.137121.026
29_D32_Q0.13611.018
147_P155_S0.134931.009
58_D61_A0.13471.008
117_L138_V0.133851.001
62_A65_A0.133621.000
72_E111_R0.133370.998
63_G90_Q0.133070.995
154_G157_A0.13240.990
8_V86_A0.131360.983
80_N83_I0.128380.960
13_G16_E0.127090.951
87_G146_D0.1270.950
62_A66_N0.126410.946
143_N146_D0.12550.939
65_A147_P0.125490.939
137_R146_D0.125410.938
32_Q36_G0.124610.932
8_V27_F0.124220.929
47_Y90_Q0.122690.918
58_D69_R0.122180.914
90_Q94_V0.121830.911
14_T51_L0.120730.903
155_S158_A0.12050.901
6_V12_R0.120040.898
153_G156_L0.11960.895
72_E77_R0.119290.892
66_N73_E0.119220.892
60_V93_M0.118770.889
128_P131_P0.118480.886
88_Y149_C0.118090.883
112_I115_V0.117920.882
146_D159_H0.117720.881
15_G51_L0.117660.880
83_I108_V0.117060.876
108_V130_I0.116730.873
28_A42_V0.116380.871
61_A65_A0.116260.870
56_Y63_G0.115240.862
83_I111_R0.115020.860
71_I74_Y0.114880.859
97_D101_G0.114770.859
74_Y81_T0.114060.853
16_E144_P0.113120.846
65_A73_E0.112550.842
92_A140_S0.112070.838
12_R15_G0.111720.836
145_G158_A0.111630.835
44_G49_A0.111480.834
138_V154_G0.111420.834
114_A137_R0.11110.831
76_A80_N0.110940.830
8_V139_R0.110410.826
28_A35_P0.110210.824
109_A138_V0.109960.823
86_A116_V0.109850.822
143_N158_A0.109230.817
7_H74_Y0.108850.814
11_A45_V0.10880.814
58_D65_A0.108730.813
155_S160_L0.108460.811
97_D122_R0.108370.811
110_D135_S0.107980.808
14_T50_S0.107650.805
29_D33_A0.107430.804
14_T47_Y0.107420.804
120_D142_C0.107410.804
6_V39_S0.107260.802
26_P65_A0.107180.802
67_L94_V0.106540.797
9_I38_T0.106310.795
9_I45_V0.105450.789
37_G157_A0.10540.788
10_F44_G0.105370.788
12_R119_G0.105230.787
99_L138_V0.105210.787
115_V138_V0.105180.787
132_G136_D0.104640.783
60_V64_V0.104260.780
69_R74_Y0.103560.775
87_G94_V0.10350.774
100_S117_L0.103410.774
88_Y142_C0.103250.772
28_A86_A0.102990.770
61_A69_R0.102950.770
59_S90_Q0.102630.768
99_L112_I0.102020.763
124_G128_P0.101680.761
70_L73_E0.101590.760
59_S62_A0.101520.759
88_Y121_P0.101320.758
76_A135_S0.101030.756
33_A129_G0.10070.753
152_S157_A0.100570.752
15_G50_S0.100540.752
65_A68_V0.100260.750
56_Y60_V0.100250.750
9_I99_L0.100240.750
14_T88_Y0.100180.749
96_G122_R0.099960.748
155_S159_H0.099930.748
43_Q70_L0.099880.747
124_G140_S0.099820.747
100_S124_G0.099350.743
114_A139_R0.099340.743
12_R118_F0.09930.743
97_D126_G0.099170.742
142_C159_H0.099150.742
76_A79_P0.098750.739
128_P152_S0.098670.738
154_G160_L0.09860.738
127_Q145_G0.098560.737
33_A65_A0.098540.737
100_S131_P0.098450.736
49_A53_P0.098180.734
35_P60_V0.097820.732
9_I67_L0.097730.731
10_F20_V0.097630.730
109_A112_I0.097550.730
51_L120_D0.097540.730
116_V141_Y0.09740.729
77_R128_P0.09720.727
151_A154_G0.096840.724
30_A86_A0.096710.723
61_A101_G0.09650.722
66_N69_R0.096430.721
17_P112_I0.096360.721
60_V63_G0.095950.718
87_G115_V0.095920.718
100_S111_R0.095840.717
141_Y144_P0.095710.716
14_T48_P0.095690.716
20_V28_A0.095520.715
41_A83_I0.095520.715
36_G40_V0.095480.714
109_A135_S0.095340.713
134_Y138_V0.095310.713
12_R89_S0.095220.712
37_G156_L0.095040.711
10_F26_P0.094860.710
143_N148_V0.094750.709
46_E109_A0.094720.709
12_R96_G0.094610.708
128_P145_G0.094460.707
27_F81_T0.094460.707
38_T42_V0.094450.707
113_A116_V0.094110.704
87_G90_Q0.094090.704
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
3qpaA0.988899.80.338
3dcnA0.988899.80.345
3qpdA0.972199.80.357
1qozA0.972199.80.377
1g66A0.972199.80.378
3ajaA199.80.381
2czqA0.944199.80.39
3hjuA0.927499.70.422
3pe6A0.927499.70.435
3i28A0.927499.70.436

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