GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
ThiG - Thiazole biosynthesis protein ThiG
Pfam: PF05690 (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: CL0036
Length: 247
Sequences: 6171
Seq/Len: 24.98
HH_delta: 0.332 (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
190_A201_V0.801132.972
171_I199_D0.732192.716
191_A195_E0.712452.643
177_P199_D0.692712.570
20_S23_V0.672252.494
186_T189_D0.658962.445
185_G189_D0.623682.314
52_D84_L0.603322.238
141_E175_D0.599582.224
184_I193_A0.586782.177
74_T77_E0.544972.022
12_I35_V0.542112.011
141_E176_V0.507531.883
116_A145_C0.495321.838
169_I172_E0.476651.768
110_I143_A0.467721.735
134_P173_R0.466621.731
117_E146_A0.464461.723
141_E174_A0.454911.688
92_N125_V0.443581.646
80_R83_R0.441851.639
168_R172_E0.438971.629
83_R122_E0.433271.607
22_E26_E0.432951.606
110_I114_K0.428791.591
167_L178_V0.427371.585
188_S192_Q0.426921.584
180_V193_A0.424381.574
114_K118_I0.42091.561
152_G163_N0.419741.557
138_K173_R0.416791.546
117_E121_K0.415021.540
189_D192_Q0.414821.539
179_I200_A0.411581.527
95_K125_V0.406621.509
137_A174_A0.406391.508
214_V218_R0.406031.506
212_D219_A0.403381.496
165_Y168_R0.402791.494
134_P169_I0.401861.491
164_P193_A0.400811.487
150_P170_I0.396071.469
164_P192_Q0.39321.459
165_Y169_I0.391781.453
134_P170_I0.390631.449
115_A118_I0.3851.428
138_K141_E0.38421.425
171_I178_V0.382981.421
114_K117_E0.382921.421
79_V119_L0.380731.412
26_E30_A0.376341.396
123_G147_A0.375121.392
139_R143_A0.374471.389
76_E80_R0.373311.385
75_A79_V0.369521.371
137_A170_I0.368541.367
203_V220_F0.366591.360
167_L180_V0.360061.336
26_E29_E0.358871.331
70_A74_T0.351191.303
139_R142_D0.350851.302
138_K142_D0.349361.296
110_I142_D0.346481.285
188_S191_A0.346271.285
27_A213_P0.344481.278
117_E122_E0.341591.267
185_G206_A0.340041.262
29_E62_G0.338931.257
82_A94_I0.338371.255
115_A119_L0.336541.249
73_R77_E0.33591.246
12_I179_I0.335121.243
53_N56_D0.330741.227
112_T115_A0.329911.224
108_D111_E0.32661.212
79_V118_I0.32241.196
29_E63_Y0.316091.173
111_E115_A0.314661.167
111_E114_K0.313381.163
187_P220_F0.311251.155
109_P140_L0.309461.148
80_R84_L0.304491.130
203_V206_A0.300741.116
135_V138_K0.300351.114
29_E66_L0.299311.110
149_M181_D0.298951.109
47_S50_G0.298761.108
161_I192_Q0.291771.082
181_D202_L0.291111.080
43_V73_R0.290561.078
132_D135_V0.290281.077
164_P196_L0.289861.075
70_A73_R0.289491.074
110_I144_G0.289321.073
134_P138_K0.286091.061
192_Q195_E0.285791.060
100_G136_L0.2851.057
25_R58_I0.282791.049
194_M201_V0.281721.045
205_T209_K0.278731.034
86_R120_V0.278411.033
13_L217_A0.277521.030
120_V143_A0.277341.029
150_P163_N0.277251.029
187_P191_A0.275871.023
79_V83_R0.275361.022
85_A94_I0.274891.020
192_Q196_L0.273711.015
170_I174_A0.269180.999
184_I201_V0.268240.995
203_V207_I0.2660.987
136_L139_R0.265860.986
189_D193_A0.262070.972
28_I36_V0.261790.971
180_V198_A0.260950.968
214_V219_A0.259940.964
117_E123_G0.259650.963
177_P200_A0.257620.956
98_V109_P0.256920.953
39_A42_R0.256530.952
207_I217_A0.254930.946
169_I173_R0.25380.942
53_N57_Y0.253530.941
24_M27_A0.252770.938
13_L33_A0.252450.937
190_A220_F0.251990.935
187_P219_A0.251160.932
30_A218_R0.249430.925
76_E106_L0.24830.921
138_K174_A0.247030.916
27_A31_S0.246980.916
13_L207_I0.246230.913
140_L145_C0.246180.913
96_L116_A0.245690.911
87_E90_G0.244510.907
174_A178_V0.244230.906
20_S49_P0.243910.905
113_L143_A0.241670.897
147_A179_I0.241040.894
147_A177_P0.238230.884
76_E79_V0.23780.882
49_P53_N0.237540.881
75_A115_A0.23660.878
167_L196_L0.234550.870
162_Q165_Y0.233660.867
179_I202_L0.233460.866
29_E61_S0.232960.864
141_E173_R0.232560.863
168_R195_E0.232520.863
135_V139_R0.232450.862
125_V129_Y0.231040.857
35_V177_P0.230730.856
193_A201_V0.230660.856
108_D154_P0.229120.850
110_I139_R0.228610.848
131_T166_N0.228230.847
148_V174_A0.226720.841
35_V200_A0.226450.840
216_M219_A0.224750.834
126_V129_Y0.223930.831
23_V27_A0.223170.828
136_L140_L0.223130.828
148_V176_V0.222880.827
12_I202_L0.22210.824
125_V146_A0.221120.820
38_V54_I0.220490.818
47_S51_G0.220050.816
25_R61_S0.219880.816
109_P129_Y0.219660.815
59_D92_N0.219340.814
57_Y60_R0.218730.811
134_P174_A0.217340.806
75_A111_E0.215660.800
151_L181_D0.21560.800
14_G204_N0.215290.799
113_L117_E0.214550.796
187_P190_A0.21450.796
146_A177_P0.214060.794
59_D90_G0.212590.789
19_P23_V0.212330.788
72_C78_A0.211630.785
168_R196_L0.211380.784
191_A194_M0.210850.782
135_V142_D0.209810.778
28_I31_S0.209630.778
83_R118_I0.209550.777
79_V115_A0.209350.777
23_V26_E0.208520.774
56_D60_R0.207960.772
127_L154_P0.207110.768
130_C137_A0.205680.763
206_A216_M0.204450.758
30_A214_V0.203940.757
69_T82_A0.203840.756
35_V93_W0.20310.753
184_I190_A0.202450.751
26_E61_S0.202330.751
35_V88_A0.202290.750
144_G176_V0.200840.745
109_P130_C0.20060.744
72_C157_S0.20030.743
99_I109_P0.200260.743
147_A200_A0.198270.736
130_C136_L0.19760.733
25_R29_E0.196840.730
204_N208_A0.195640.726
122_E157_S0.195450.725
59_D62_G0.195230.724
24_M28_I0.195140.724
134_P137_A0.194920.723
36_V63_Y0.19440.721
52_D56_D0.193820.719
37_T41_R0.192770.715
24_M213_P0.192410.714
113_L139_R0.191860.712
36_V62_G0.190450.707
182_A204_N0.190120.705
43_V74_T0.189940.705
187_P206_A0.18990.705
12_I200_A0.18970.704
82_A116_A0.189380.703
72_C82_A0.187590.696
74_T157_S0.187580.696
76_E83_R0.187180.694
216_M220_F0.187110.694
187_P216_M0.18690.693
100_G104_T0.186340.691
51_G84_L0.186230.691
190_A194_M0.186220.691
145_C148_V0.185940.690
98_V102_D0.185740.689
78_A82_A0.185420.688
193_A198_A0.185320.688
17_K36_V0.18530.687
207_I213_P0.185180.687
36_V66_L0.183520.681
125_V128_P0.181880.675
212_D216_M0.181710.674
76_E115_A0.180930.671
72_C81_T0.180740.671
167_L198_A0.179940.668
106_L132_D0.179680.667
171_I198_A0.179410.666
94_I120_V0.179310.665
64_T92_N0.179160.665
51_G85_A0.178760.663
137_A144_G0.178350.662
108_D139_R0.177780.660
114_K143_A0.177410.658
163_N193_A0.177320.658
150_P166_N0.176180.654
213_P216_M0.175460.651
113_L144_G0.175140.650
86_R121_K0.174770.648
45_L50_G0.17460.648
164_P168_R0.174320.647
106_L112_T0.174080.646
206_A220_F0.172110.639
217_A220_F0.171610.637
67_P93_W0.171010.634
133_D170_I0.170990.634
201_V220_F0.170450.632
109_P113_L0.170450.632
29_E32_G0.170280.632
61_S80_R0.170010.631
17_K204_N0.169360.628
16_G39_A0.169180.628
14_G17_K0.16870.626
168_R197_G0.168460.625
162_Q183_G0.167960.623
59_D68_N0.16790.623
121_K142_D0.167710.622
153_S157_S0.167540.622
44_N103_K0.167380.621
38_V55_L0.166340.617
43_V77_E0.165890.615
214_V217_A0.16540.614
98_V101_D0.165250.613
207_I216_M0.165170.613
120_V146_A0.165140.613
173_R178_V0.164250.609
129_Y154_P0.163010.605
151_L159_R0.162720.604
69_T93_W0.162620.603
98_V112_T0.162510.603
73_R157_S0.162110.601
118_I122_E0.160680.596
100_G109_P0.159530.592
24_M207_I0.159440.592
75_A106_L0.158910.590
31_S213_P0.158860.589
35_V66_L0.158270.587
74_T123_G0.158140.587
80_R87_E0.157750.585
113_L116_A0.157440.584
166_N169_I0.157060.583
123_G129_Y0.1570.582
194_M198_A0.156980.582
43_V47_S0.156960.582
41_R71_G0.156740.581
25_R36_V0.156320.580
78_A81_T0.155520.577
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
1wv2A11000.332
2htmA0.98791000.361
1xm3A0.9961000.412
4ef8A0.967699.90.461
3i65A0.963699.90.471
3oixA0.955599.90.475
3zwtA0.971799.90.481
1jubA0.967699.90.495
2e6fA0.971799.90.497
1tv5A0.967699.90.512

Page generated in 0.0344 seconds.