GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
PUCC - PUCC protein
Pfam: PF03209 (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: CL0015
Length: 403
Sequences: 57967
Seq/Len: 143.84
HH_delta: 0.211 (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
59_L102_G1.672533.106
34_F105_A1.641073.047
66_I95_A1.561922.900
118_A126_V1.523722.829
330_T338_F1.469662.729
13_P16_L1.438072.670
48_R116_D1.432482.660
242_S245_E1.396162.593
63_G95_A1.291792.399
122_R125_R1.287652.391
39_D336_G1.284792.386
119_P122_R1.266482.352
291_L307_G1.176082.184
124_P269_S1.174842.182
284_L314_G1.169122.171
63_G102_G1.157222.149
56_G105_A1.122412.084
274_K328_D1.119552.079
331_S334_R1.115152.071
302_W306_P1.102132.047
218_F349_A1.085572.016
38_S109_S1.054931.959
30_L101_L1.053591.956
202_R206_A1.049461.949
260_G313_L1.044051.939
256_G309_F1.034991.922
273_G276_R1.028491.910
68_P159_Q1.015181.885
27_V97_L0.998871.855
63_G98_L0.994961.848
36_H40_T0.991591.841
288_A307_G0.972171.805
222_L353_G0.944191.753
152_F156_R0.90741.685
241_M245_E0.888161.649
154_P158_I0.888111.649
37_R41_H0.864331.605
30_L104_H0.84991.578
63_G99_Y0.844491.568
275_K279_A0.842811.565
288_A314_G0.823811.530
154_P157_L0.814631.513
158_I161_I0.812171.508
245_E248_R0.804621.494
276_R280_L0.787461.462
300_S303_L0.783871.456
226_M357_G0.780061.449
94_L98_L0.778181.445
159_Q162_Q0.774861.439
35_G39_D0.769791.429
159_Q163_G0.763971.419
286_A290_A0.759541.410
14_A362_D0.75841.408
276_R279_A0.758011.408
156_R159_Q0.755051.402
256_G260_G0.751591.396
115_A123_R0.750441.394
42_P50_T0.750011.393
162_Q166_L0.749651.392
70_A91_L0.747411.388
70_A95_A0.74731.388
120_E123_R0.742011.378
23_L93_A0.741481.377
158_I162_Q0.738311.371
20_L92_A0.735791.366
263_L266_F0.734151.363
283_L287_L0.730811.357
114_L130_V0.730261.356
198_R202_R0.72671.349
35_G336_G0.725371.347
30_L33_W0.717541.332
290_A294_L0.716061.330
358_G362_D0.709761.318
334_R337_L0.708451.316
33_W36_H0.706251.311
65_A69_F0.70571.310
302_W305_R0.702541.305
214_F345_A0.697041.294
272_L276_R0.685821.274
253_W312_G0.685621.273
203_Q206_A0.684811.272
203_Q334_R0.67751.258
147_R151_P0.676741.257
143_I251_A0.676191.256
236_G243_V0.675011.253
23_L97_L0.673961.252
59_L63_G0.672331.248
260_G263_L0.669411.243
49_R53_I0.668161.241
125_R269_S0.666351.237
281_G317_L0.665511.236
153_S156_R0.665131.235
225_F350_R0.664041.233
66_I69_F0.662111.230
116_D335_A0.660381.226
91_L95_A0.658751.223
174_I178_G0.653461.213
27_V30_L0.653161.213
56_G102_G0.646681.201
123_R328_D0.646041.200
208_P212_R0.644671.197
211_R215_V0.642891.194
208_P211_R0.642081.192
205_W211_R0.641981.192
281_G314_G0.638911.186
326_M342_W0.638031.185
39_D337_L0.635561.180
96_F100_G0.6351.179
26_L351_G0.632971.175
125_R129_I0.63151.173
273_G277_T0.629061.168
155_E158_I0.626851.164
264_A317_L0.6231.157
155_E159_Q0.622741.156
96_F99_Y0.622181.155
280_L284_L0.620411.152
143_I147_R0.620321.152
202_R205_W0.613521.139
207_S211_R0.612121.137
162_Q165_A0.610371.133
22_A351_G0.607481.128
91_L94_L0.606131.126
259_L262_L0.604721.123
38_S48_R0.60371.121
287_L291_L0.603361.120
174_I177_W0.602551.119
163_G167_I0.602541.119
288_A311_L0.600461.115
19_L23_L0.60041.115
272_L277_T0.598491.111
265_G269_S0.597321.109
324_S328_D0.596541.108
332_A335_A0.596261.107
255_G259_L0.595061.105
349_A353_G0.59411.103
284_L288_A0.593191.102
266_F271_R0.592611.100
150_D244_G0.591671.099
236_G246_T0.591421.098
281_G318_F0.590471.096
19_L355_F0.589891.095
283_L286_A0.58961.095
15_W19_L0.589221.094
42_P49_R0.589021.094
15_W362_D0.588171.092
41_H50_T0.588071.092
306_P310_L0.587231.090
166_L170_L0.586781.090
234_Y239_F0.585491.087
233_P236_G0.583761.084
161_I164_V0.582911.082
263_L267_L0.575831.069
62_G66_I0.570741.060
244_G248_R0.569491.058
248_R252_F0.568221.055
257_T316_G0.567331.054
41_H51_P0.567151.053
22_A355_F0.566321.052
67_A95_A0.563351.046
134_L138_I0.562391.044
259_L263_L0.561981.044
173_L177_W0.561561.043
37_R51_P0.558731.038
118_A122_R0.555271.031
157_L161_I0.554831.030
144_V147_R0.553811.028
58_L62_G0.553211.027
16_L93_A0.54851.019
32_V36_H0.54661.015
60_Q102_G0.543921.010
138_I254_G0.542891.008
115_A335_A0.542871.008
210_A214_F0.541561.006
306_P309_F0.537140.997
184_S187_A0.535320.994
288_A310_L0.534140.992
217_L342_W0.533770.991
234_Y238_V0.53180.988
196_P199_E0.5310.986
279_A283_L0.530240.985
160_V163_G0.527920.980
65_A162_Q0.524270.974
127_V324_S0.523110.971
146_G247_T0.522360.970
16_L19_L0.522180.970
51_P54_W0.521780.969
104_H108_T0.520590.967
233_P237_E0.516310.959
356_L359_A0.516040.958
42_P51_P0.515820.958
192_R197_F0.513370.953
291_L294_L0.512740.952
132_V135_I0.511950.951
163_G166_L0.509990.947
262_L266_F0.507710.943
359_A362_D0.506660.941
267_L272_L0.506160.940
310_L314_G0.504140.936
18_A358_G0.502640.933
24_H100_G0.501150.931
67_A92_A0.499380.927
170_L174_I0.499110.927
235_G241_M0.498390.925
169_L173_L0.497870.925
231_L308_V0.497170.923
39_D48_R0.493620.917
61_A65_A0.490910.912
355_F359_A0.49020.910
280_L283_L0.490130.910
114_L126_V0.489920.910
251_A255_G0.489210.908
266_F269_S0.488530.907
61_A165_A0.487030.904
125_R266_F0.484520.900
348_I352_L0.483960.899
142_A251_A0.482740.896
135_I257_T0.48130.894
340_G344_A0.480860.893
66_I91_L0.480370.892
303_L306_P0.479850.891
140_V143_I0.4790.889
199_E202_R0.477920.887
161_I165_A0.477730.887
279_A282_C0.477260.886
179_Q182_R0.47690.886
50_T54_W0.476360.885
289_F293_I0.474560.881
177_W180_E0.474290.881
175_A179_Q0.473490.879
327_M339_M0.471070.875
267_L277_T0.47020.873
190_A193_P0.470060.873
264_A267_L0.470060.873
252_F305_R0.464790.863
58_L61_A0.461940.858
24_H103_V0.460660.855
165_A168_A0.460550.855
178_G181_P0.458520.851
305_R309_F0.45820.851
18_A22_A0.456520.848
183_R186_R0.456480.848
317_L321_G0.454070.843
48_R112_A0.453530.842
252_F256_G0.45290.841
94_L97_L0.451660.839
38_S112_A0.451220.838
303_L307_G0.448160.832
200_A203_Q0.446980.830
215_V218_F0.446630.829
148_L156_R0.446170.829
247_T251_A0.446130.828
279_A286_A0.44580.828
320_V324_S0.4450.826
108_T111_L0.44490.826
34_F108_T0.444710.826
133_M137_G0.44430.825
352_L356_L0.444060.825
49_R54_W0.443450.823
167_I170_L0.443130.823
58_L169_L0.442820.822
277_T280_L0.442780.822
351_G355_F0.441460.820
256_G259_L0.441350.820
112_A339_M0.440440.818
182_R185_R0.438210.814
139_I255_G0.437950.813
21_V229_V0.437670.813
336_G340_G0.436930.811
67_A70_A0.436840.811
235_G239_F0.436060.810
301_P305_R0.434710.807
268_L321_G0.434670.807
344_A348_I0.433770.805
148_L152_F0.433570.805
272_L275_K0.431780.802
199_E203_Q0.43140.801
34_F37_R0.431380.801
113_L117_L0.429520.798
194_R197_F0.429130.797
50_T53_I0.428630.796
290_A293_I0.428010.795
248_R251_A0.424740.789
31_R343_G0.423750.787
13_P362_D0.42330.786
156_R160_V0.42310.786
141_S145_F0.422810.785
180_E183_R0.422770.785
181_P184_S0.422270.784
20_L93_A0.421690.783
124_P265_G0.420490.781
211_R214_F0.419780.780
181_P185_R0.419690.779
96_F107_G0.419590.779
323_L327_M0.419490.779
207_S210_A0.419370.779
30_L34_F0.419130.778
229_V232_E0.418580.777
223_A227_Q0.417810.776
15_W355_F0.41720.775
249_L305_R0.414250.769
165_A169_L0.413550.768
320_V323_L0.413070.767
235_G304_F0.41120.764
14_A237_E0.410650.763
124_P324_S0.41050.762
230_I358_G0.409790.761
220_G318_F0.409260.760
61_A169_L0.408830.759
225_F228_D0.408790.759
210_A338_F0.407960.758
245_E249_L0.407750.757
16_L20_L0.406950.756
285_G314_G0.406640.755
227_Q231_L0.406640.755
110_F113_L0.405870.754
57_T61_A0.405810.754
60_Q103_V0.405170.752
309_F313_L0.404340.751
176_L180_E0.404060.750
115_A127_V0.401560.746
156_R163_G0.40150.746
205_W208_P0.400560.744
126_V133_M0.400060.743
69_F91_L0.400030.743
262_L265_G0.399710.742
32_V344_A0.399580.742
110_F130_V0.399030.741
207_S334_R0.398990.741
105_A109_S0.398910.741
130_V133_M0.398150.739
249_L252_F0.398120.739
157_L160_V0.397810.739
128_A132_V0.397680.738
256_G312_G0.397030.737
36_H337_L0.396510.736
111_L130_V0.396060.735
132_V258_L0.395730.735
285_G288_A0.395630.735
48_R51_P0.394980.733
138_I142_A0.394630.733
173_L176_L0.393620.731
19_L22_A0.392790.729
350_R354_T0.391560.727
192_R195_P0.391290.727
60_Q64_L0.391110.726
125_R128_A0.390850.726
131_W134_L0.390440.725
325_L328_D0.39010.724
124_P128_A0.389820.724
312_G316_G0.389560.723
307_G310_L0.389320.723
196_P200_A0.389040.722
241_M249_L0.388660.722
42_P48_R0.388660.722
347_A350_R0.388420.721
135_I138_I0.387660.720
349_A352_L0.387660.720
260_G264_A0.387460.719
123_R327_M0.387450.719
131_W135_I0.386350.717
127_V327_M0.385990.717
305_R308_V0.385880.717
176_L179_Q0.385860.717
299_G303_L0.384930.715
147_R150_D0.384930.715
253_W308_V0.383650.712
221_T346_Q0.383550.712
354_T358_G0.383530.712
295_A307_G0.383180.712
22_A25_Y0.3830.711
255_G258_L0.382580.710
171_L175_A0.381660.709
56_G59_L0.38060.707
212_R216_F0.380520.707
31_R347_A0.379280.704
192_R196_P0.378940.704
235_G238_V0.378480.703
127_V131_W0.378150.702
112_A116_D0.377870.702
147_R248_R0.376860.700
175_A178_G0.376270.699
345_A348_I0.374760.696
209_Q212_R0.374390.695
147_R244_G0.373820.694
232_E236_G0.373230.693
151_P155_E0.3730.693
112_A336_G0.372620.692
59_L98_L0.370960.689
132_V262_L0.370770.689
24_H27_V0.370770.689
111_L339_M0.370770.689
115_A327_M0.370650.688
95_A98_L0.370480.688
31_R340_G0.370480.688
265_G268_L0.370180.687
54_W58_L0.369830.687
323_L342_W0.369810.687
252_F309_F0.369160.686
183_R187_A0.36880.685
146_G248_R0.368480.684
204_V208_P0.367650.683
34_F104_H0.367010.682
201_W204_V0.366880.681
203_Q333_G0.366040.680
198_R201_W0.365640.679
193_P196_P0.365610.679
212_R215_V0.364420.677
341_A345_A0.362680.673
197_F200_A0.362570.673
63_G66_I0.362450.673
143_I146_G0.361940.672
291_L295_A0.361390.671
128_A265_G0.361050.670
167_I171_L0.36060.670
108_T112_A0.360470.669
327_M335_A0.360380.669
214_F217_L0.360080.669
56_G109_S0.360060.669
121_E125_R0.359430.667
35_G38_S0.3590.667
100_G104_H0.35830.665
230_I233_P0.357840.664
22_A26_L0.357760.664
156_R161_I0.357530.664
14_A361_R0.357450.664
282_C318_F0.357250.663
251_A254_G0.355970.661
267_L271_R0.355880.661
150_D242_S0.355690.660
213_F216_F0.355470.660
140_V144_V0.353840.657
62_G65_A0.353250.656
123_R127_V0.353010.656
19_L93_A0.352170.654
154_P159_Q0.351610.653
122_R126_V0.351150.652
322_A326_M0.35070.651
151_P244_G0.350650.651
154_P160_V0.350510.651
309_F312_G0.35050.651
230_I357_G0.349230.649
296_G299_G0.348950.648
168_A172_N0.34890.648
21_V354_T0.348810.648
344_A347_A0.347630.646
136_V258_L0.347430.645
326_M330_T0.347330.645
114_L123_R0.346730.644
153_S157_L0.346340.643
325_L329_L0.346210.643
288_A291_L0.346080.643
352_L355_F0.346010.643
241_M301_P0.345530.642
206_A210_A0.344990.641
227_Q232_E0.344390.640
20_L23_L0.343930.639
25_Y351_G0.343870.639
150_D153_S0.343620.638
224_F227_Q0.343310.638
64_L99_Y0.342190.635
335_A339_M0.341660.634
243_V247_T0.341350.634
191_E194_R0.340760.633
343_G346_Q0.339330.630
245_E301_P0.339060.630
137_G141_S0.3390.630
160_V164_V0.33870.629
278_A321_G0.338290.628
136_V140_V0.337920.628
232_E235_G0.337270.626
347_A351_G0.337160.626
34_F38_S0.336540.625
278_A322_A0.335750.623
142_A250_T0.335710.623
18_A230_I0.33560.623
15_W359_A0.335490.623
67_A99_Y0.335410.623
131_W261_M0.335350.623
326_M329_L0.334940.622
170_L173_L0.334850.622
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
1pw4A0.91811000.211
3o7qA0.89581000.232
4j05A0.92561000.234
2gfpA0.87341000.279
4apsA0.91561000.307
4jr9A0.89331000.314
4iu9B0.89331000.327
2cfqA0.91071000.338
4gc0A0.96281000.383
2xutA0.94041000.393

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