GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
Transgly - Transglycosylase
Pfam: PF00912 (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. )
Length: 178
Sequences: 4255
Seq/Len: 23.9
HH_delta: -0.04 (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
134_K143_E1.722984.409
125_E135_S1.514433.876
125_E136_P1.154992.956
26_L124_V1.073982.748
37_R45_D1.028662.632
24_P28_D0.989252.532
48_A51_R0.982132.513
36_R176_R0.953772.441
167_K171_N0.901882.308
19_L27_I0.878482.248
24_P27_I0.878042.247
121_I130_Y0.873642.236
103_S106_E0.861642.205
33_S172_R0.851332.179
41_H99_E0.838142.145
102_Y110_L0.805312.061
19_L109_E0.805242.061
74_A98_L0.801662.051
39_Y105_D0.796272.038
18_P21_D0.778191.991
27_I105_D0.748351.915
55_Q64_Q0.732981.876
153_N156_R0.731851.873
30_L148_A0.704491.803
30_L151_L0.680611.742
25_N144_A0.680471.741
33_S176_R0.673051.722
21_D137_S0.67271.721
23_P136_P0.671091.717
26_L144_A0.666071.705
117_F124_V0.655151.677
30_L117_F0.654061.674
25_N28_D0.640931.640
146_L166_A0.631861.617
29_A177_M0.616811.578
51_R64_Q0.613711.571
175_D178_V0.609041.559
115_I151_L0.600211.536
135_S138_D0.597011.528
37_R40_S0.589541.509
19_L105_D0.581821.489
73_L110_L0.579351.483
25_N141_L0.546741.399
26_L30_L0.539361.380
119_N158_N0.531431.360
31_I39_Y0.528781.353
139_L144_A0.523011.338
163_P167_K0.518941.328
70_T95_A0.517691.325
45_D48_A0.500481.281
162_N165_R0.498231.275
146_L170_R0.495841.269
19_L22_I0.494091.264
116_Y120_G0.49381.264
26_L112_L0.48961.253
33_S152_P0.474941.215
37_R41_H0.467421.196
22_I26_L0.466911.195
74_A78_F0.46491.190
27_I108_L0.463241.185
85_L89_L0.462251.183
29_A148_A0.460851.179
22_I27_I0.453451.160
129_R133_G0.452021.157
59_S63_V0.451771.156
79_L94_L0.448481.148
106_E109_E0.445521.140
56_N62_R0.443091.134
37_R47_K0.442151.131
50_A53_I0.441811.131
134_K138_D0.441311.129
70_T99_E0.44131.129
62_R83_R0.440211.127
97_R101_R0.439491.125
49_I71_Q0.439351.124
165_R168_E0.438891.123
17_V22_I0.437191.119
44_I92_A0.432041.106
27_I39_Y0.425841.090
112_L124_V0.421281.078
164_E168_E0.420681.077
42_P46_P0.41931.073
4_L7_T0.418421.071
35_D41_H0.417891.069
119_N130_Y0.416611.066
142_A170_R0.416551.066
167_K170_R0.41511.062
18_P109_E0.413381.058
86_R90_R0.411161.052
97_R100_R0.393561.007
46_P49_I0.392721.005
172_R176_R0.392451.004
116_Y122_Y0.3921.003
125_E129_R0.391651.002
59_S62_R0.390160.998
149_G166_A0.386090.988
53_I56_N0.385280.986
30_L124_V0.380710.974
76_N115_I0.376190.963
16_Y109_E0.373960.957
62_R85_L0.373140.955
79_L87_R0.372840.954
141_L174_L0.371980.952
23_P144_A0.370310.948
99_E104_K0.368860.944
156_R165_R0.367830.941
52_A56_N0.367160.940
55_Q63_V0.366060.937
19_L39_Y0.360230.922
15_E129_R0.357050.914
76_N114_S0.356590.913
129_R135_S0.348860.893
46_P96_L0.345670.885
48_A64_Q0.3450.883
153_N157_Y0.344650.882
17_V136_P0.344130.881
99_E107_I0.34040.871
119_N160_Y0.338630.867
75_K81_N0.338140.865
149_G173_V0.334910.857
28_D39_Y0.331840.849
74_A94_L0.330920.847
117_F151_L0.330580.846
146_L149_G0.330150.845
63_V83_R0.32840.840
66_G75_K0.32830.840
82_E87_R0.327290.838
74_A77_L0.324680.831
30_L112_L0.323230.827
44_I49_I0.320610.820
50_A54_V0.319770.818
42_P96_L0.315510.807
89_L93_I0.314910.806
33_S169_R0.314520.805
56_N59_S0.312810.801
27_I31_I0.311340.797
77_L110_L0.310530.795
31_I108_L0.308410.789
87_R91_E0.306220.784
136_P139_L0.305810.783
124_V147_L0.305310.781
44_I96_L0.304740.780
44_I95_A0.303150.776
56_N85_L0.298160.763
56_N83_R0.296710.759
93_I97_R0.293530.751
17_V124_V0.292820.749
49_I92_A0.291490.746
69_I115_I0.291060.745
39_Y108_L0.288510.738
170_R174_L0.286620.733
78_F94_L0.285660.731
19_L108_L0.28370.726
71_Q75_K0.283350.725
77_L114_S0.283320.725
54_V58_K0.280270.717
157_Y165_R0.278260.712
136_P144_A0.277110.709
75_K87_R0.27590.706
30_L69_I0.275710.706
26_L139_L0.274420.702
118_G131_Y0.273030.699
75_K79_L0.271190.694
85_L92_A0.270950.693
128_S136_P0.270680.693
152_P156_R0.269590.690
49_I68_T0.269090.689
71_Q91_E0.268510.687
56_N64_Q0.267880.686
46_P50_A0.263940.675
15_E125_E0.26260.672
17_V125_E0.261850.670
33_S173_V0.260620.667
106_E110_L0.259570.664
117_F147_L0.259080.663
14_R114_S0.257910.660
149_G169_R0.257620.659
109_E113_N0.257330.659
49_I66_G0.25690.657
22_I124_V0.25620.656
55_Q59_S0.255310.653
164_E167_K0.254780.652
43_G104_K0.254680.652
63_V66_G0.253730.649
26_L136_P0.253590.649
86_R89_L0.253430.649
141_L177_M0.253250.648
124_V136_P0.253150.648
13_N120_G0.251930.645
73_L77_L0.248450.636
127_A131_Y0.247650.634
42_P100_R0.247640.634
13_N126_A0.246960.632
162_N166_A0.246530.631
84_T87_R0.246060.630
134_K140_S0.244960.627
45_D66_G0.244780.626
6_A12_Q0.244520.626
152_P157_Y0.243560.623
23_P30_L0.241180.617
148_A151_L0.239590.613
34_E72_Q0.238360.610
7_T13_N0.238250.610
32_A149_G0.238230.610
128_S134_K0.237480.608
146_L159_P0.234350.600
142_A146_L0.232530.595
25_N29_A0.23250.595
140_S144_A0.231950.594
33_S149_G0.231810.593
77_L98_L0.228820.586
163_P170_R0.228750.585
70_T107_I0.226640.580
94_L97_R0.226260.579
23_P26_L0.225930.578
116_Y121_I0.225170.576
121_I155_S0.225130.576
145_A174_L0.223320.571
30_L115_I0.223160.571
53_I57_L0.221950.568
49_I56_N0.221460.567
117_F131_Y0.221360.566
80_S94_L0.218620.559
67_S72_Q0.217610.557
96_L100_R0.217410.556
157_Y169_R0.216570.554
158_N161_R0.216560.554
125_E137_S0.215950.553
70_T104_K0.215240.551
71_Q90_R0.214750.550
117_F152_P0.214070.548
4_L16_Y0.212910.545
152_P173_V0.211870.542
132_F143_E0.211380.541
33_S148_A0.211370.541
20_D105_D0.210890.540
145_A170_R0.210620.539
128_S139_L0.210180.538
127_A147_L0.209330.536
32_A177_M0.20930.536
131_Y150_L0.208830.534
150_L166_A0.208630.534
150_L153_N0.206940.530
119_N155_S0.206210.528
90_R93_I0.205630.526
156_R162_N0.205140.525
166_A170_R0.205050.525
76_N79_L0.203890.522
47_K50_A0.202990.519
163_P166_A0.202650.519
23_P135_S0.202160.517
58_K62_R0.201950.517
116_Y154_P0.201130.515
117_F127_A0.200860.514
168_E175_D0.198670.508
92_A96_L0.197940.507
21_D24_P0.196410.503
169_R172_R0.195780.501
102_Y106_E0.195630.501
73_L94_L0.194010.496
108_L112_L0.193910.496
43_G96_L0.191870.491
8_F110_L0.190670.488
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
3fwmA1100-0.04
2jchA1100-0.039
3udfA0.9944100-0.038
2oqoA0.9944100-0.02
2olvA0.99441000.021
3vmtA0.98311000.023
3hzsA0.98311000.026
3zg7B0.46631000.496
1qmeA0.80999.20.782
4jbfA0.365299.20.785

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