GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
CAT - Chloramphenicol acetyltransferase
Pfam: PF00302 (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: CL0149
Length: 206
Sequences: 3617
Seq/Len: 17.56
HH_delta: 0.03 (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
118_A122_R1.169793.654
64_E204_E1.166823.645
121_E125_E0.984523.076
71_R81_Y0.918232.869
115_N118_A0.900492.813
65_I204_E0.88612.768
122_R133_P0.841732.630
35_D179_R0.808662.526
33_N176_E0.790252.469
175_E178_G0.763112.384
55_L86_P0.745132.328
175_E180_L0.727792.274
58_I140_I0.721152.253
34_L184_V0.68312.134
59_M84_I0.676242.113
107_E115_N0.663822.074
27_Y187_Q0.620031.937
62_A140_I0.603371.885
108_D111_E0.590461.845
58_I205_L0.588851.840
152_S155_H0.58681.833
67_E197_H0.559971.749
40_Y50_F0.558881.746
70_Y80_Y0.533731.667
65_I200_Q0.527611.648
56_Y60_K0.526191.644
36_V182_M0.512281.600
67_E80_Y0.505661.580
55_L116_Y0.499951.562
73_V77_E0.498121.556
190_H195_G0.495221.547
116_Y120_I0.49331.541
78_V192_L0.479751.499
61_A205_L0.478681.495
39_L53_A0.474491.482
123_Y129_L0.472541.476
196_Y200_Q0.46731.460
30_V188_V0.462911.446
37_T179_R0.461311.441
125_E128_G0.459231.435
70_Y192_L0.45611.425
87_S99_S0.453991.418
36_V39_L0.452511.414
37_T41_K0.447631.398
95_D127_K0.446831.396
55_L88_Y0.441171.378
54_Y170_W0.438051.368
37_T180_L0.43561.361
184_V205_L0.434141.356
153_F156_P0.432791.352
97_T101_C0.430911.346
120_I124_K0.424241.325
55_L142_I0.413461.292
83_R104_E0.412481.289
38_N41_K0.412291.288
150_F153_F0.411411.285
55_L112_F0.401491.254
63_N105_Y0.401311.254
85_D103_T0.398971.246
155_H158_P0.398051.243
33_N151_T0.394321.232
107_E111_E0.39171.224
58_I201_F0.386611.208
60_K64_E0.38411.200
104_E107_E0.381341.191
28_F188_V0.376921.177
154_S158_P0.371951.162
150_F156_P0.370591.158
60_K63_N0.3691.153
29_S187_Q0.366591.145
110_E114_A0.365471.142
153_F158_P0.364671.139
88_Y116_Y0.357061.115
63_N84_I0.354041.106
42_Y53_A0.353831.105
69_R139_L0.350921.096
41_K45_E0.347171.085
40_Y180_L0.345981.081
91_F200_Q0.342051.069
73_V79_V0.340941.065
30_V198_V0.337811.055
68_F193_V0.335911.049
118_A121_E0.335391.048
153_F157_V0.332941.040
140_I166_P0.332771.040
186_I198_V0.330291.032
154_S157_V0.329661.030
72_I192_L0.323731.011
173_Y180_L0.322381.007
36_V173_Y0.321751.005
188_V198_V0.319080.997
40_Y44_K0.317260.991
155_H169_T0.308890.965
140_I201_F0.308390.963
150_F155_H0.307870.962
91_F196_Y0.307590.961
186_I202_F0.302140.944
157_V160_G0.301870.943
68_F201_F0.300680.939
41_K44_K0.298960.934
103_T106_D0.298260.932
168_I205_L0.296030.925
83_R105_Y0.292360.913
100_F104_E0.292190.913
40_Y43_A0.291040.909
103_T107_E0.289540.905
122_R130_F0.287770.899
122_R128_G0.285550.892
33_N181_L0.283540.886
165_I169_T0.281620.880
152_S157_V0.281540.880
130_F133_P0.281210.878
30_V202_F0.280780.877
30_V145_L0.278990.872
149_S157_V0.278890.871
87_S161_K0.278130.869
87_S138_N0.275840.862
68_F197_H0.275520.861
111_E115_N0.274520.858
52_P109_F0.274290.857
52_P112_F0.273770.855
117_E121_E0.273140.853
29_S185_S0.270530.845
84_I105_Y0.270290.844
152_S156_P0.269340.841
170_W182_M0.269060.841
111_E114_A0.268280.838
168_I173_Y0.265280.829
149_S156_P0.264280.826
67_E200_Q0.264270.826
101_C138_N0.263830.824
92_H95_D0.26340.823
60_K204_E0.260590.814
129_L135_D0.259710.811
90_V124_K0.258080.806
149_S155_H0.257150.803
85_D107_E0.255670.799
74_D77_E0.251590.786
184_V202_F0.251580.786
114_A117_E0.251260.785
31_T152_S0.249210.779
167_R170_W0.248770.777
130_F136_P0.246570.770
109_F113_Y0.2460.768
32_V202_F0.245370.767
131_P136_P0.245360.766
102_W107_E0.244440.764
149_S152_S0.244130.763
85_D101_C0.243940.762
106_D111_E0.240980.753
59_M86_P0.240940.753
145_L153_F0.240160.750
115_N122_R0.23990.749
36_V180_L0.239110.747
35_D38_N0.237450.742
201_F205_L0.234360.732
25_N157_V0.234240.732
48_L52_P0.234190.732
151_T154_S0.233380.729
140_I168_I0.231250.722
85_D133_P0.230460.720
65_I197_H0.226810.709
31_T183_P0.225980.706
33_N174_F0.225590.705
140_I186_I0.224590.702
51_F147_W0.222790.696
122_R129_L0.221550.692
176_E181_L0.22030.688
33_N183_P0.219890.687
51_F88_Y0.219870.687
161_K166_P0.219230.685
169_T172_K0.217620.680
100_F103_T0.21640.676
190_H194_D0.216340.676
121_E124_K0.214050.669
200_Q203_E0.2120.662
150_F154_S0.211950.662
102_W106_D0.211260.660
56_Y112_F0.210920.659
38_N179_R0.210710.658
151_T174_F0.210140.656
138_N161_K0.209980.656
150_F158_P0.209480.654
52_P116_Y0.209190.654
197_H200_Q0.208920.653
42_Y45_E0.208540.651
184_V201_F0.207770.649
86_P140_I0.20650.645
168_I175_E0.206310.645
160_G166_P0.204970.640
51_F54_Y0.204840.640
101_C106_D0.20460.639
159_N167_R0.203230.635
85_D138_N0.2030.634
68_F166_P0.20290.634
145_L185_S0.202670.633
89_T97_T0.202440.632
54_Y182_M0.202050.631
160_G168_I0.201120.628
41_K180_L0.200970.628
99_S103_T0.200890.628
61_A204_E0.200390.626
158_P161_K0.200250.626
67_E192_L0.199980.625
116_Y119_D0.199670.624
151_T155_H0.199330.623
54_Y142_I0.198570.620
59_M63_N0.198160.619
61_A65_I0.198070.619
101_C104_E0.197610.617
40_Y173_Y0.197330.616
160_G165_I0.197210.616
166_P170_W0.197180.616
149_S158_P0.196650.614
60_K84_I0.196420.614
62_A68_F0.195760.612
132_K136_P0.195340.610
31_T185_S0.194040.606
34_L183_P0.193290.604
35_D181_L0.193150.603
102_W116_Y0.192930.603
30_V171_G0.192350.601
62_A201_F0.192180.600
58_I168_I0.192070.600
86_P112_F0.192060.600
165_I192_L0.191860.599
100_F106_D0.191390.598
170_W173_Y0.191090.597
171_G199_G0.190780.596
194_D197_H0.190240.594
172_K175_E0.19010.594
150_F157_V0.189540.592
165_I168_I0.189460.592
67_E78_V0.189070.591
31_T151_T0.188380.588
56_Y59_M0.188210.588
37_T175_E0.188070.588
87_S103_T0.187920.587
149_S153_F0.187860.587
157_V161_K0.187530.586
58_I166_P0.187490.586
188_V193_V0.187140.585
88_Y120_I0.186830.584
131_P135_D0.186660.583
71_R83_R0.185640.580
88_Y142_I0.185260.579
101_C105_Y0.185120.578
50_F173_Y0.184830.577
97_T167_R0.184510.576
112_F119_D0.184280.576
58_I61_A0.183330.573
30_V199_G0.182650.571
39_L43_A0.182210.569
166_P193_V0.18210.569
156_P159_N0.181660.567
98_F135_D0.180820.565
168_I186_I0.180030.562
166_P169_T0.179290.560
115_N119_D0.178710.558
71_R79_V0.178620.558
149_S154_S0.177250.554
47_G178_G0.176680.552
32_V150_F0.175540.548
64_E71_R0.174920.546
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
3claA0.99031000.03
1q23A0.98541000.033
2i9dA0.98541000.048
2ii3A0.97091000.196
3b8kA0.9661000.198
1sczA0.9661000.203
3rqcA0.97091000.206
1dpbA0.97091000.21
3dvaI0.97091000.212
3l60A0.97091000.212

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