GREMLIN.BAKERLAB.org

Archive: 2012 - 2013
UPF0118 - Domain of unknown function DUF20
Pfam: PF01594 (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: 327
Sequences: 4960
Seq/Len: 15.17
HH_delta: 0.947 (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
212_G265_V0.752214.472
210_F225_G0.713644.243
260_L264_I0.482172.867
296_A316_L0.46592.770
33_Y188_D0.447912.663
41_F45_F0.421782.508
206_G225_G0.418572.488
48_P51_L0.402022.390
206_G229_F0.400952.384
47_I55_L0.397172.361
210_F214_S0.390052.319
31_L154_L0.377282.243
320_K324_E0.375252.231
213_F218_I0.364352.166
247_A263_L0.361392.149
28_A154_L0.354642.108
155_F159_L0.349512.078
257_W261_I0.329511.959
247_A259_A0.328161.951
264_I268_V0.323281.922
211_I214_S0.322691.918
41_F44_R0.31981.901
199_L233_F0.318221.892
43_R49_R0.309141.838
197_G281_I0.307821.830
209_T228_A0.30161.793
153_F291_L0.301271.791
209_T269_I0.300981.789
153_F157_F0.299031.778
214_S221_A0.2951.754
261_I264_I0.294131.749
35_L158_L0.289591.722
160_D289_H0.285081.695
277_L281_I0.282621.680
280_K284_R0.281881.676
39_V56_V0.266221.583
53_A155_F0.266181.582
39_V53_A0.264641.573
221_A225_G0.261811.557
50_S54_L0.261311.554
219_P253_Q0.259551.543
208_L269_I0.259461.543
36_N40_R0.258221.535
205_Q232_S0.257731.532
267_I271_Q0.256541.525
50_S159_L0.255981.522
36_N49_R0.250031.486
201_L273_E0.248671.478
257_W260_L0.248391.477
182_E325_E0.246931.468
187_I318_V0.246841.468
91_D94_K0.244971.456
211_I215_I0.244851.456
270_Q274_D0.243851.450
258_A261_I0.24161.436
28_A32_A0.23941.423
250_A262_V0.238471.418
39_V49_R0.237751.413
301_G309_L0.237541.412
85_N88_Q0.236421.406
210_F221_A0.234521.394
38_L41_F0.233981.391
50_S155_F0.229231.363
25_F295_L0.228791.360
227_L242_V0.228761.360
173_P177_R0.228681.360
224_L246_A0.227621.353
227_L231_L0.226621.347
186_K325_E0.225281.339
212_G216_F0.224861.337
120_N124_S0.221371.316
202_A232_S0.220891.313
251_L259_A0.219771.307
231_L242_V0.218621.300
65_V69_Y0.217511.293
38_L56_V0.216531.287
88_Q91_D0.215681.282
186_K324_E0.215591.282
113_N116_Q0.214561.276
28_A150_F0.212831.265
232_S239_P0.212141.261
24_P28_A0.211741.259
172_L180_F0.211711.259
92_K95_S0.211161.255
136_F140_I0.209141.243
96_W99_D0.208491.240
29_L157_F0.208371.239
261_I265_V0.207811.235
295_L299_I0.207461.233
166_R170_R0.207091.231
83_I87_P0.206471.228
150_F154_L0.205341.221
272_L277_L0.205011.219
274_D278_R0.204041.213
35_L60_L0.202111.202
42_L59_L0.201521.198
250_A259_A0.200021.189
80_Q84_E0.200021.189
225_G229_F0.199851.188
300_G316_L0.19841.180
163_K166_R0.197991.177
206_G210_F0.197551.174
49_R162_E0.195341.161
117_L120_N0.195181.160
47_I52_A0.195121.160
254_G258_A0.194581.157
292_L316_L0.194481.156
25_F153_F0.194291.155
205_Q269_I0.193421.150
297_V309_L0.193121.148
143_F147_F0.192371.144
122_L125_I0.191971.141
272_L276_I0.191631.139
53_A57_L0.190841.135
119_S123_Q0.190831.135
216_F265_V0.19031.131
229_F233_F0.190211.131
169_I181_E0.189631.127
61_L65_V0.189241.125
39_V52_A0.188931.123
225_G228_A0.188831.123
288_I316_L0.188471.120
213_F224_L0.188221.119
255_G258_A0.187931.117
94_K98_N0.187871.117
201_L232_S0.187711.116
307_I311_L0.187591.115
205_Q278_R0.187481.115
271_Q275_N0.187071.112
190_S317_A0.185951.106
193_A285_S0.18551.103
212_G269_I0.184191.095
193_A197_G0.183941.094
296_A300_G0.18331.090
116_Q120_N0.183081.088
273_E278_R0.181861.081
213_F262_V0.181721.080
39_V158_L0.181.070
220_Y223_L0.179581.068
87_P91_D0.178861.063
120_N123_Q0.178751.063
243_L247_A0.176231.048
297_V302_Y0.175991.046
160_D163_K0.175611.044
201_L282_M0.175541.044
72_I76_I0.17471.039
210_F222_L0.174031.035
32_A154_L0.173961.034
169_I177_R0.173911.034
319_I323_F0.173531.032
201_L278_R0.173361.031
35_L56_V0.17281.027
116_Q119_S0.172351.025
300_G304_F0.171821.022
205_Q209_T0.171651.020
243_L266_F0.171421.019
36_N161_G0.171391.019
205_Q239_P0.171391.019
198_Q278_R0.170741.015
201_L205_Q0.170561.014
134_S138_S0.170551.014
199_L203_L0.169851.010
232_S278_R0.168941.004
54_L58_L0.168641.003
161_G165_R0.16730.995
239_P242_V0.166570.990
95_S98_N0.16620.988
166_R181_E0.165990.987
24_P283_G0.164550.978
130_L133_L0.164440.978
216_F258_A0.164080.975
212_G261_I0.163960.975
91_D95_S0.163840.974
183_I325_E0.163560.972
224_L249_Y0.163050.969
121_L124_S0.162280.965
200_I281_I0.16210.964
242_V313_P0.161880.962
246_A262_V0.161480.960
265_V269_I0.160250.953
124_S127_S0.159590.949
179_R325_E0.158930.945
167_F170_R0.158460.942
32_A157_F0.15810.940
35_L38_L0.156690.932
202_A236_Y0.15650.930
196_K200_I0.156320.929
198_Q202_A0.156220.929
104_L107_L0.156170.928
187_I321_A0.155750.926
312_A316_L0.155460.924
156_F289_H0.155010.922
300_G315_I0.154970.921
204_I277_L0.154750.920
51_L54_L0.154230.917
103_W106_E0.154140.916
153_F295_L0.15410.916
268_V272_L0.1540.916
205_Q270_Q0.153780.914
201_L281_I0.153680.914
205_Q273_E0.152030.904
213_F246_A0.151420.900
95_S99_D0.151310.900
229_F232_S0.150510.895
218_I250_A0.149980.892
81_S84_E0.149960.892
207_V210_F0.149810.891
292_L320_K0.149020.886
77_Q81_S0.148490.883
32_A36_N0.147930.879
228_A266_F0.147580.877
209_T213_F0.147560.877
296_A312_A0.147240.875
137_I141_F0.147080.874
69_Y73_P0.146510.871
115_D118_I0.146360.870
57_L154_L0.146160.869
259_A263_L0.14610.869
194_Y232_S0.145780.867
47_I51_L0.144950.862
213_F228_A0.144930.862
59_L62_L0.144610.860
289_H320_K0.144030.856
194_Y314_P0.143560.853
306_F309_L0.143220.851
206_G226_V0.143110.851
216_F261_I0.142690.848
242_V314_P0.141270.840
228_A232_S0.141120.839
142_S146_N0.141010.838
283_G293_I0.140060.833
206_G222_L0.139560.830
214_S225_G0.139220.828
43_R52_A0.13880.825
214_S217_G0.138280.822
202_A266_F0.138220.822
263_L267_I0.138190.822
282_M293_I0.137090.815
280_K297_V0.137010.815
42_L47_I0.137010.815
283_G287_G0.136760.813
25_F157_F0.136530.812
205_Q245_P0.13640.811
84_E88_Q0.13640.811
73_P314_P0.136230.810
198_Q232_S0.136220.810
191_L194_Y0.136130.809
286_L293_I0.135840.808
252_L255_G0.135420.805
216_F262_V0.135050.803
183_I322_I0.13490.802
42_L52_A0.134760.801
40_R162_E0.134040.797
280_K287_G0.134020.797
203_L229_F0.133990.797
112_D115_D0.133410.793
278_R313_P0.133380.793
129_I132_S0.133070.791
31_L150_F0.133020.791
230_I233_F0.132930.790
228_A242_V0.132750.789
154_L158_L0.132610.788
276_I280_K0.132290.786
241_I245_P0.132270.786
89_Y93_I0.132060.785
200_I203_L0.132030.785
244_I248_I0.131820.784
270_Q273_E0.131730.783
164_L291_L0.131270.780
201_L283_G0.130860.778
321_A325_E0.130860.778
251_L255_G0.130780.778
193_A196_K0.130340.775
182_E186_K0.130250.774
211_I225_G0.130240.774
165_R169_I0.130040.773
305_G308_G0.129850.772
206_G228_A0.12960.770
229_F236_Y0.129360.769
126_L130_L0.129210.768
123_Q127_S0.12880.766
163_K167_F0.128770.766
24_P195_L0.128760.766
280_K283_G0.128460.764
286_L313_P0.1280.761
27_L150_F0.127810.760
194_Y278_R0.127630.759
194_Y283_G0.127570.758
40_R58_L0.127480.758
177_R180_F0.127310.757
21_F299_I0.127290.757
270_Q301_G0.127040.755
248_I252_L0.126860.754
173_P235_P0.126760.754
202_A205_Q0.126410.752
239_P270_Q0.125820.748
24_P146_N0.125540.746
167_F171_L0.12550.746
249_Y253_Q0.12520.744
42_L56_V0.124770.742
213_F266_F0.124690.741
265_V270_Q0.124690.741
119_S122_L0.124590.741
301_G314_P0.124330.739
197_G317_A0.123940.737
126_L129_I0.123360.733
30_V310_I0.123330.733
105_Q108_Q0.12330.733
200_I204_I0.123050.732
73_P87_P0.122520.728
117_L121_L0.122390.728
242_V270_Q0.12230.727
152_I290_P0.12210.726
203_L207_V0.122030.725
218_I246_A0.121650.723
49_R53_A0.121440.722
79_I83_I0.121330.721
278_R282_M0.121320.721
35_L39_V0.120640.717
63_I67_L0.120480.716
129_I264_I0.120470.716
135_S147_F0.120460.716
201_L277_L0.120060.714
98_N102_S0.120.713
196_K201_L0.119920.713
209_T212_G0.119880.713
202_A233_F0.119760.712
52_A56_V0.119690.712
232_S240_I0.119510.711
201_L239_P0.119470.710
242_V273_E0.119410.710
111_P127_S0.119410.710
79_I223_L0.119390.710
178_E182_E0.119390.710
153_F298_I0.119380.710
32_A158_L0.119310.709
165_R185_R0.119090.708
81_S85_N0.118950.707
131_S134_S0.118330.703
56_V223_L0.118160.702
192_S196_K0.118090.702
123_Q126_L0.118060.702
277_L280_K0.118040.702
23_L26_V0.117630.699
149_I153_F0.117620.699
156_F160_D0.117610.699
183_I187_I0.117390.698
236_Y290_P0.117380.698
181_E185_R0.117330.698
198_Q236_Y0.116770.694
228_A239_P0.116650.694
68_F72_I0.116020.690
198_Q287_G0.115930.689
88_Q92_K0.11560.687
149_I298_I0.115590.687
205_Q265_V0.115480.687
166_R178_E0.115430.686
78_Q282_M0.115040.684
179_R182_E0.114950.683
304_F312_A0.113950.677
27_L31_L0.11390.677
249_Y313_P0.113890.677
198_Q201_L0.113780.676
234_I240_I0.113630.676
293_I313_P0.113510.675
24_P194_Y0.113470.675
34_L320_K0.11330.674
132_S136_F0.112990.672
35_L52_A0.112650.670
126_L150_F0.112520.669
114_L121_L0.11240.668
290_P294_L0.112340.668
190_S321_A0.112290.668
137_I140_I0.11220.667
193_A317_A0.1120.666
202_A206_G0.111950.666
145_F149_I0.111740.664
250_A314_P0.111690.664
297_V313_P0.111570.663
33_Y192_S0.111190.661
219_P222_L0.111170.661
196_K289_H0.111120.661
224_L282_M0.111050.660
133_L137_I0.111040.660
282_M313_P0.110940.660
196_K232_S0.110770.659
112_D230_I0.110670.658
36_N158_L0.110660.658
228_A231_L0.110440.657
297_V310_I0.110380.656
24_P31_L0.110340.656
63_I112_D0.110280.656
172_L179_R0.110280.656
164_L289_H0.110260.656
97_L102_S0.109910.653
167_F292_L0.109780.653
155_F160_D0.109760.653
125_I128_S0.10970.652
266_F278_R0.109590.652
78_Q81_S0.109530.651
157_F275_N0.109520.651
186_K190_S0.109480.651
64_L68_F0.109310.650
226_V229_F0.109220.649
112_D116_Q0.109190.649
208_L277_L0.109180.649
300_G312_A0.108730.646
232_S270_Q0.10840.644
253_Q258_A0.108060.642
204_I208_L0.1080.642
187_I322_I0.107970.642
294_L298_I0.10780.641
97_L268_V0.107710.640
169_I172_L0.107580.640
90_L93_I0.107480.639
136_F142_S0.10720.637
141_F197_G0.10720.637
162_E165_R0.107180.637
271_Q274_D0.107140.637
215_I254_G0.107110.637
213_F225_G0.10710.637
30_V291_L0.107090.637
57_L155_F0.106930.636
122_L128_S0.106920.636
156_F290_P0.106830.635
112_D168_L0.106810.635
232_S273_E0.106740.635
190_S318_V0.106720.634
62_L94_K0.106610.634
32_A300_G0.106460.633
191_L314_P0.106440.633
66_L70_L0.106410.633
202_A229_F0.106370.632
273_E309_L0.106360.632
278_R281_I0.106360.632
239_P280_K0.106180.631
118_I121_L0.106120.631
30_V150_F0.10610.631
67_L71_I0.106090.631
207_V211_I0.106050.630
78_Q197_G0.106030.630
21_F293_I0.105740.629
300_G306_F0.105720.629
266_F270_Q0.105680.628
292_L296_A0.105450.627
282_M297_V0.105420.627
48_P148_F0.105210.625
224_L252_L0.105120.625
71_I222_L0.105040.624
140_I144_L0.104830.623
150_F312_A0.104730.623
235_P238_G0.104710.623
230_I234_I0.104550.622
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
3tx3A0.727850.60.947
2ksdA0.311910.90.961
3rvyA0.373110.30.962
3k3fA0.39146.80.965
2kv5A0.10095.60.966
2akfA0.09795.50.966
2m20A0.18355.20.966
3bz1X0.15294.70.967
3l32A0.13764.40.967
4j05A0.54434.20.968
If you are interested in a protein containing this domain,
drop us a note and we'll try to predict the structure for you.

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