GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
DHO_dh - Dihydroorotate dehydrogenase
Pfam: PF01180 (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: 295
Sequences: 6863
Seq/Len: 23.26
HH_delta: 0.186 (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
5_N10_T1.25134.156
238_R268_S0.940193.123
256_G290_E0.851122.827
155_R188_D0.807212.681
158_R191_D0.768332.552
285_R289_R0.762742.533
16_G269_A0.756352.512
119_K160_A0.716942.381
184_E187_A0.705782.344
280_G286_R0.694592.307
186_A242_G0.679112.256
260_I264_M0.645512.144
248_I271_Q0.642392.134
254_H258_D0.630562.094
115_A160_A0.61882.055
78_E120_R0.617882.052
158_R165_V0.607652.018
179_F240_A0.60742.018
255_S258_D0.605442.011
116_E120_R0.601321.997
151_A155_R0.600961.996
248_I269_A0.596061.980
183_A240_A0.595441.978
70_M74_N0.591951.966
116_E119_K0.580721.929
7_C166_F0.572191.901
122_E161_V0.571151.897
253_I270_V0.564691.876
151_A188_D0.561971.867
155_R159_E0.556891.850
13_N37_G0.547961.820
231_L262_F0.543251.804
166_F192_G0.537941.787
8_G163_I0.536011.780
5_N8_G0.533411.772
122_E162_D0.527441.752
112_E116_E0.519421.725
47_E113_D0.509521.692
261_E265_A0.505681.680
115_A156_A0.497121.651
253_I262_F0.492511.636
272_V287_I0.489861.627
259_A272_V0.486541.616
80_Y127_A0.480691.597
182_A241_L0.480161.595
150_V167_V0.476761.584
115_A119_K0.475641.580
241_L245_I0.460821.531
195_A237_L0.459941.528
9_L127_A0.458681.524
57_I81_L0.457081.518
12_K78_E0.451811.501
235_R239_K0.451151.499
238_R247_I0.449251.492
167_V190_A0.445281.479
11_L269_A0.440791.464
256_G287_I0.435831.448
16_G248_I0.4351.445
249_G267_A0.43331.439
249_G262_F0.433131.439
147_P180_A0.433041.438
118_A157_V0.42931.426
150_V181_I0.42721.419
257_E261_E0.4231.405
145_Q148_E0.420181.396
256_G260_I0.41951.393
4_T246_P0.418491.390
111_I115_A0.413831.375
72_L79_Y0.410231.363
156_A159_E0.409971.362
180_A184_E0.409291.359
142_P145_Q0.405921.348
285_R288_N0.402141.336
250_V271_Q0.398371.323
118_A161_V0.394531.310
246_P268_S0.393181.306
118_A128_L0.390571.297
4_T269_A0.389551.294
236_E239_K0.388271.290
152_E155_R0.387291.286
60_L63_G0.384561.277
63_G120_R0.384261.276
169_L195_A0.381.262
279_R286_R0.375511.247
156_A160_A0.374291.243
11_L16_G0.372661.238
193_I241_L0.371241.233
259_A270_V0.370661.231
186_A245_I0.365431.214
184_E188_D0.364351.210
36_F276_L0.364341.210
183_A187_A0.361741.202
148_E152_E0.360361.197
100_I103_I0.357451.187
259_A287_I0.353641.175
44_V81_L0.353051.173
41_T79_Y0.351211.167
122_E163_I0.348231.157
132_L150_V0.34651.151
115_A159_E0.344731.145
254_H275_A0.344651.145
18_A273_C0.340811.132
16_G38_A0.340441.131
151_A187_A0.337371.121
238_R242_G0.335081.113
179_F236_E0.334781.112
17_L39_V0.331241.100
182_A237_L0.328381.091
196_I199_F0.327961.089
30_R33_D0.327631.088
60_L120_R0.324091.076
194_V250_V0.319731.062
182_A193_I0.318941.059
16_G40_V0.318761.059
112_E115_A0.318171.057
257_E290_E0.31711.053
236_E240_A0.316921.053
151_A184_E0.316111.050
129_E194_V0.315871.049
154_V185_L0.315311.047
31_L75_P0.314841.046
13_N288_N0.314411.044
282_G286_R0.312911.039
26_E68_N0.310141.030
154_V188_D0.309551.028
18_A271_Q0.307411.021
27_E30_R0.306081.017
82_E85_R0.304941.013
185_L190_A0.304151.010
44_V80_Y0.303171.007
262_F267_A0.300280.997
147_P151_A0.296770.986
51_G86_P0.296320.984
121_L128_L0.295130.980
154_V167_V0.294370.978
267_A270_V0.294290.977
15_I270_V0.291940.970
46_P114_W0.290870.966
283_V287_I0.290290.964
260_I263_L0.286920.953
6_F246_P0.286580.952
234_V249_G0.285580.949
111_I152_E0.285310.948
45_T58_F0.283950.943
47_E106_D0.283910.943
16_G271_Q0.279560.929
67_L70_M0.279050.927
12_K288_N0.278870.926
71_G74_N0.27870.926
86_P90_E0.276440.918
111_I156_A0.276310.918
75_P79_Y0.273170.907
167_V185_L0.272390.905
286_R290_E0.270440.898
157_V160_A0.270240.898
15_I288_N0.269830.896
40_V194_V0.26880.893
46_P117_L0.267360.888
178_P237_L0.265460.882
100_I127_A0.265240.881
165_V168_K0.26450.879
285_R291_L0.264280.878
275_A283_V0.264030.877
253_I259_A0.263580.875
79_Y82_E0.263220.874
29_K33_D0.262560.872
158_R161_V0.262280.871
43_S102_S0.261980.870
174_T177_E0.260670.866
166_F248_I0.25980.863
171_P233_W0.258110.857
175_D236_E0.257230.854
176_I179_F0.257140.854
7_C192_G0.253680.843
261_E264_M0.251930.837
122_E160_A0.250260.831
234_V247_I0.24910.827
255_S283_V0.249020.827
183_A186_A0.248820.826
130_L153_I0.248340.825
232_R236_E0.247570.822
28_I31_L0.247270.821
8_G164_P0.247030.821
194_V271_Q0.246910.820
260_I290_E0.246290.818
112_E156_A0.245750.816
130_L157_V0.244050.811
25_G234_V0.241960.804
258_D262_F0.239630.796
158_R162_D0.239050.794
46_P84_L0.238670.793
77_L117_L0.238550.792
78_E82_E0.23820.791
147_P181_I0.237930.790
154_V158_R0.236530.786
66_I69_S0.23640.785
113_D116_E0.235720.783
121_L124_G0.23450.779
101_A104_N0.234490.779
249_G270_V0.234410.779
6_F11_L0.233620.776
139_G152_E0.233290.775
153_I156_A0.232970.774
150_V188_D0.232780.773
34_A285_R0.230630.766
111_I153_I0.229540.762
232_R235_R0.228110.758
83_R117_L0.227870.757
100_I104_N0.227710.756
173_F196_I0.227680.756
40_V127_A0.227510.756
101_A137_V0.227120.754
119_K159_E0.227030.754
4_T7_C0.226750.753
19_S168_K0.226740.753
6_F269_A0.226510.752
195_A247_I0.226450.752
258_D261_E0.225970.751
234_V265_A0.225070.748
192_G248_I0.224510.746
36_F284_I0.224040.744
151_A181_I0.223480.742
77_L121_L0.223070.741
4_T14_P0.222870.740
79_Y83_R0.222510.739
45_T50_E0.222250.738
146_D180_A0.221110.734
154_V190_A0.219530.729
114_W157_V0.219240.728
241_L247_I0.219240.728
81_L121_L0.21790.724
133_S150_V0.216850.720
4_T11_L0.215780.717
40_V271_Q0.215720.717
148_E151_A0.214950.714
131_N168_K0.214760.713
45_T49_R0.213450.709
11_L38_A0.211990.704
82_E87_I0.211470.702
182_A240_A0.211470.702
45_T104_N0.211430.702
272_V276_L0.210930.701
52_N56_R0.210830.700
172_N199_F0.210610.700
97_I102_S0.209890.697
162_D189_G0.2090.694
6_F192_G0.207250.688
41_T81_L0.207250.688
177_E180_A0.207150.688
57_I70_M0.205530.683
41_T80_Y0.205440.682
72_L77_L0.205190.682
29_K32_F0.204960.681
20_G273_C0.203890.677
234_V262_F0.203810.677
86_P89_K0.203480.676
175_D178_P0.203440.676
224_P254_H0.203140.675
73_P126_D0.201950.671
115_A161_V0.20180.670
177_E181_I0.20090.667
263_L270_V0.200670.667
186_A241_L0.200550.666
9_L78_E0.198980.661
31_L71_G0.198230.658
20_G105_G0.197930.657
180_A183_A0.197720.657
276_L284_I0.196770.654
260_I291_L0.196040.651
24_N75_P0.195790.650
179_F183_A0.19570.650
28_I32_F0.195580.650
15_I284_I0.195170.648
140_G144_G0.194750.647
235_R265_A0.194230.645
73_P79_Y0.193810.644
107_S113_D0.193810.644
46_P104_N0.192810.640
134_C140_G0.192580.640
279_R282_G0.19240.639
158_R188_D0.192320.639
84_L87_I0.19230.639
179_F182_A0.19180.637
130_L154_V0.191590.636
190_A241_L0.190860.634
196_I251_G0.190840.634
129_E166_F0.190250.632
193_I245_I0.190060.631
152_E156_A0.190020.631
31_L39_V0.189840.631
107_S139_G0.18960.630
195_A198_T0.188850.627
134_C137_V0.188720.627
169_L181_I0.188640.627
98_P127_A0.188620.627
12_K96_D0.188550.626
20_G24_N0.188240.625
45_T48_P0.187870.624
141_R146_D0.187610.623
195_A233_W0.186780.620
6_F166_F0.186450.619
138_P141_R0.186040.618
141_R144_G0.185790.617
272_V283_V0.184940.614
175_D234_V0.184740.614
149_L152_E0.18390.611
284_I288_N0.182370.606
21_L105_G0.182350.606
282_G285_R0.18140.603
139_G155_R0.180840.601
190_A193_I0.180140.598
178_P181_I0.180110.598
118_A124_G0.180.598
17_L36_F0.179710.597
29_K87_I0.179550.596
246_P269_A0.179040.595
156_A165_V0.178880.594
167_V193_I0.178840.594
287_I290_E0.178660.593
81_L120_R0.178430.593
199_F274_S0.178350.592
168_K252_G0.178160.592
12_K35_G0.17810.592
47_E116_E0.177950.591
157_V165_V0.177930.591
189_G241_L0.177830.591
139_G144_G0.177410.589
175_D240_A0.177170.588
85_R88_L0.177130.588
233_W237_L0.176730.587
167_V181_I0.176540.586
59_R62_E0.175880.584
132_L138_P0.175520.583
275_A279_R0.175370.582
4_T9_L0.175360.582
103_I117_L0.175340.582
198_T223_G0.175310.582
57_I66_I0.175250.582
11_L37_G0.173740.577
139_G142_P0.17350.576
85_R89_K0.172930.574
104_N137_V0.172860.574
63_G69_S0.172720.574
117_L120_R0.17260.573
46_P113_D0.172470.573
51_G55_P0.172450.573
40_V100_I0.172060.572
133_S181_I0.172010.571
70_M73_P0.171870.571
133_S147_P0.171860.571
146_D149_L0.17180.571
111_I139_G0.171620.570
20_G25_G0.170980.568
17_L284_I0.170940.568
150_V154_V0.170510.566
35_G285_R0.170340.566
283_V286_R0.169920.564
49_R52_N0.169160.562
151_A154_V0.168220.559
11_L127_A0.168190.559
25_G175_D0.168160.559
69_S125_A0.167450.556
77_L120_R0.167280.556
51_G76_G0.166590.553
13_N36_F0.16650.553
150_V153_I0.166040.552
195_A234_V0.16560.550
68_N198_T0.165350.549
114_W139_G0.164250.546
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
3i65A0.97631000.186
3zwtA0.98311000.191
4ef8A0.96611000.193
1tv5A0.97631000.201
3oixA0.96271000.206
3tjxA0.96611000.24
1jubA0.97631000.262
1f76A0.94921000.264
2e6fA0.96611000.28
1ep3A0.95251000.337

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