GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Acyl_transf_2 - Acyl transferase
Pfam: PF02273 (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: 294
Sequences: 19516
Seq/Len: 66.38
HH_delta: 0.072 (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
104_G126_F2.330144.477
19_E59_H2.114544.063
66_L87_S2.109184.053
204_N232_P1.688783.245
119_A127_L1.439952.767
105_L115_A1.324732.545
102_R125_S1.186442.280
89_L118_V1.17742.262
14_Q73_S1.173612.255
229_Y244_V1.16322.235
17_V91_V1.151912.213
93_D123_N1.14042.191
204_N230_S1.11692.146
218_L226_C1.061272.039
92_I103_I1.05612.029
89_L93_D1.044772.007
199_I248_F1.03791.994
19_E61_I1.031191.981
211_Q230_S1.018861.958
129_T132_G0.992841.908
32_T59_H0.978391.880
36_A88_L0.975781.875
104_G125_S0.968181.860
86_A121_D0.915741.760
16_R71_L0.912111.753
89_L122_I0.910951.750
104_G249_Y0.906571.742
131_V206_D0.902491.734
198_F221_I0.901191.732
115_A127_L0.892651.715
118_V122_I0.892091.714
18_W43_M0.880291.691
112_A132_G0.87571.683
21_R59_H0.844211.622
36_A65_S0.839181.612
20_T62_R0.834651.604
88_L118_V0.833521.602
215_E230_S0.831131.597
32_T61_I0.819571.575
61_I91_V0.803371.544
199_I229_Y0.796941.531
190_D193_R0.795421.528
244_V247_N0.793051.524
231_L234_S0.785211.509
104_G128_I0.779191.497
117_E121_D0.777251.493
56_N246_R0.774591.488
127_L198_F0.76861.477
116_Y129_T0.766761.473
231_L244_V0.759191.459
30_N59_H0.749721.441
215_E219_D0.747841.437
82_S121_D0.718421.380
95_L100_I0.716991.378
16_R64_D0.71411.372
243_V247_N0.707351.359
128_I199_I0.704681.354
38_G109_S0.70121.347
63_Y88_L0.696911.339
63_Y91_V0.69151.329
33_I58_F0.686681.319
36_A115_A0.683921.314
37_P65_S0.683691.314
216_E219_D0.682071.311
202_T214_V0.675461.298
58_F250_Q0.674841.297
22_P59_H0.674171.295
89_L121_D0.673071.293
33_I106_I0.671471.290
31_N102_R0.670411.288
202_T211_Q0.660161.268
211_Q215_E0.656681.262
85_K117_E0.65331.255
52_Y56_N0.651461.252
85_K114_I0.649251.247
227_K244_V0.644371.238
205_D233_G0.643551.237
50_A62_R0.641591.233
109_S236_H0.639091.228
35_I60_V0.638531.227
52_Y55_A0.631431.213
128_I245_L0.62711.205
35_I106_I0.624551.200
64_D70_G0.623291.198
49_L242_L0.61881.189
106_I130_A0.612811.177
31_N104_G0.612691.177
202_T230_S0.611.172
56_N250_Q0.608531.169
91_V95_L0.607971.168
199_I227_K0.607581.167
65_S114_I0.60371.160
117_E120_A0.603411.159
40_A109_S0.601631.156
90_T93_D0.598291.150
43_M64_D0.598081.149
126_F197_P0.596181.146
54_S60_V0.595281.144
36_A63_Y0.594021.141
215_E228_L0.590321.134
89_L123_N0.586461.127
93_D122_I0.585791.126
31_N58_F0.585161.124
13_R66_L0.584191.122
216_E220_N0.581611.118
192_K220_N0.580471.115
16_R43_M0.578731.112
204_N233_G0.568551.092
15_I72_S0.568351.092
120_A190_D0.55661.069
201_F231_L0.556321.069
58_F104_G0.549811.056
37_P68_H0.549141.055
41_R45_H0.548931.055
218_L228_L0.546391.050
91_V94_W0.545181.048
20_T54_S0.54451.046
17_V61_I0.543171.044
40_A110_L0.541251.040
100_I103_I0.527111.013
16_R72_S0.526861.012
215_E218_L0.524721.008
57_G246_R0.524631.008
15_I87_S0.522941.005
99_G102_R0.522061.003
65_S110_L0.521871.003
128_I249_Y0.51920.998
35_I46_F0.518960.997
105_L118_V0.518160.996
214_V228_L0.515690.991
34_L103_I0.515120.990
32_T103_I0.514740.989
33_I53_L0.510030.980
36_A105_L0.50790.976
86_A90_T0.505830.972
117_E190_D0.504240.969
43_M62_R0.501880.964
234_S238_L0.501350.963
13_R73_S0.50070.962
33_I60_V0.500590.962
20_T50_A0.500150.961
80_T83_I0.499450.960
107_A115_A0.498460.958
106_I128_I0.496860.955
130_A241_N0.494480.950
50_A54_S0.493160.948
39_F110_L0.491440.944
11_D66_L0.491380.944
32_T100_I0.49090.943
61_I95_L0.489470.940
90_T94_W0.481450.925
202_T228_L0.47870.920
246_R250_Q0.476920.916
34_L92_I0.472540.908
105_L124_L0.470080.903
212_S215_E0.470030.903
217_L221_I0.46710.897
200_A226_C0.465960.895
43_M71_L0.461760.887
35_I53_L0.461420.887
31_N125_S0.45990.884
129_T200_A0.45910.882
108_A131_V0.458490.881
92_I118_V0.45790.880
37_P63_Y0.456950.878
32_T58_F0.455310.875
83_I86_A0.452180.869
103_I124_L0.448530.862
120_A193_R0.446120.857
128_I201_F0.444070.853
107_A111_S0.439970.845
92_I124_L0.437740.841
115_A119_A0.435490.837
106_I245_L0.43170.829
204_N211_Q0.429520.825
108_A237_D0.425920.818
34_L105_L0.42510.817
50_A60_V0.42070.808
64_D72_S0.419370.806
126_F248_F0.419130.805
131_V203_A0.419090.805
11_D90_T0.416790.801
47_A51_E0.416670.801
118_V124_L0.413810.795
35_I62_R0.413110.794
200_A218_L0.411910.791
194_L221_I0.411360.790
200_A214_V0.409480.787
108_A130_A0.406410.781
84_G110_L0.406190.780
234_S241_N0.405840.780
85_K89_L0.403560.775
52_Y246_R0.40270.774
32_T95_L0.400280.769
21_R30_N0.398790.766
119_A196_I0.398640.766
206_D209_V0.398350.765
20_T60_V0.396910.763
34_L63_Y0.396760.762
120_A194_L0.39480.759
241_N245_L0.39240.754
57_G250_Q0.39060.751
189_N192_K0.389940.749
107_A112_A0.38910.748
110_L113_R0.386790.743
51_E55_A0.382450.735
110_L114_I0.381790.734
108_A239_G0.380580.731
17_V94_W0.378940.728
17_V95_L0.378920.728
35_I50_A0.378050.726
33_I104_G0.376410.723
197_P225_K0.376190.723
200_A228_L0.375780.722
188_I220_N0.375340.721
22_P30_N0.37470.720
46_F49_L0.372110.715
127_L196_I0.369930.711
214_V218_L0.369850.711
15_I66_L0.366640.704
126_F249_Y0.365960.703
58_F249_Y0.365570.702
126_F129_T0.365170.702
200_A217_L0.363910.699
240_E244_V0.363720.699
112_A131_V0.362690.697
221_I226_C0.362260.696
130_A201_F0.360360.692
245_L249_Y0.359460.691
88_L114_I0.35840.689
200_A221_I0.354110.680
11_D83_I0.353920.680
43_M63_Y0.353780.680
212_S216_E0.352390.677
18_W47_A0.351050.675
202_T209_V0.350640.674
11_D86_A0.348430.669
92_I100_I0.348190.669
48_G51_E0.347540.668
45_H239_G0.3470.667
124_L127_L0.346580.666
82_S117_E0.342660.658
130_A238_L0.341910.657
75_D79_F0.341160.656
206_D236_H0.339160.652
119_A194_L0.336980.647
47_A62_R0.335550.645
85_K121_D0.334330.642
40_A68_H0.33410.642
214_V217_L0.333760.641
37_P42_R0.333680.641
131_V202_T0.332720.639
243_V246_R0.33140.637
89_L92_I0.330920.636
49_L52_Y0.330520.635
34_L61_I0.329550.633
124_L196_I0.329170.632
54_S57_G0.326940.628
119_A124_L0.326380.627
86_A122_I0.326170.627
245_L248_F0.326080.627
46_F108_A0.323570.622
34_L88_L0.323460.621
82_S86_A0.322660.620
210_K213_E0.322320.619
131_V237_D0.321990.619
112_A129_T0.321920.619
247_N250_Q0.320070.615
86_A89_L0.319530.614
170_E173_V0.31880.613
201_F229_Y0.318570.612
64_D71_L0.314320.604
105_L127_L0.313790.603
89_L124_L0.312550.601
109_S131_V0.312210.600
135_N186_S0.311710.599
84_G114_I0.309160.594
84_G87_S0.308990.594
44_D47_A0.308860.593
191_M221_I0.307690.591
18_W62_R0.307540.591
213_E217_L0.305480.587
52_Y242_L0.305150.586
65_S88_L0.305080.586
125_S128_I0.305060.586
36_A114_I0.304020.584
42_R45_H0.303880.584
53_L60_V0.29980.576
135_N138_D0.299240.575
45_H108_A0.298810.574
83_I87_S0.298360.573
32_T104_G0.298110.573
169_A173_V0.297940.572
131_V238_L0.297810.572
171_V175_D0.296740.570
121_D190_D0.296350.569
244_V248_F0.295820.568
75_D78_E0.295460.568
201_F241_N0.293060.563
138_D142_K0.292770.563
221_I225_K0.29260.562
39_F108_A0.292060.561
174_T178_E0.29190.561
211_Q228_L0.290410.558
181_W185_D0.28730.552
160_L163_E0.287250.552
172_F176_C0.287130.552
152_P159_D0.286050.550
84_G88_L0.284730.547
44_D71_L0.284120.546
129_T198_F0.283380.544
68_H110_L0.283230.544
137_R141_E0.282810.543
19_E22_P0.28260.543
34_L91_V0.282320.542
65_S84_G0.281360.541
130_A239_G0.280880.540
31_N101_R0.280190.538
103_I123_N0.280180.538
41_R237_D0.279840.538
51_E54_S0.27940.537
203_A236_H0.278420.535
168_G171_V0.277910.534
118_V123_N0.277050.532
115_A129_T0.276160.531
157_P161_D0.275960.530
107_A119_A0.275420.529
242_L245_L0.275260.529
39_F65_S0.273470.525
119_A129_T0.273270.525
222_N226_C0.272940.524
101_R125_S0.272160.523
187_T190_D0.27210.523
234_S240_E0.272060.523
158_E162_F0.271450.522
38_G41_R0.270770.520
113_R133_V0.270210.519
231_L238_L0.270070.519
139_T142_K0.270040.519
116_Y217_L0.269440.518
101_R123_N0.269310.517
231_L241_N0.26850.516
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
1thtA11000.072
3om8A0.82311000.348
3i28A0.86051000.349
3vdxA0.94561000.352
1b6gA0.83331000.354
2xt0A0.82651000.356
1zoiA0.81631000.356
3ia2A0.81291000.356
2wtmA0.81971000.359
1a88A0.81631000.361

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